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The HIV-1 envelope protein gp120 is both the target of neutralizing antibodies and a major focus of vaccine efforts; however how it is delivered to B cells to elicit an antibody response is unknown . Here , we show that following local gp120 injection lymph node ( LN ) SIGN-R1+ sinus macrophages located in interfollicu... | The human immune system contains many different cell types , which play specific roles in defending the body from invading pathogens , such as bacteria and viruses . For example , macrophages engulf and digest foreign material , whereas specialized B cells termed plasma cells produce molecules called antibodies that he... | [
"Abstract",
"Introduction",
"Results",
"Discussion",
"Materials",
"and",
"methods"
] | [
"immunology",
"and",
"inflammation"
] | 2015 | The HIV-1 envelope protein gp120 is captured and displayed for B cell recognition by SIGN-R1+ lymph node macrophages |
To successfully guide limb movements , the brain takes in sensory information about the limb , internally tracks the state of the limb , and produces appropriate motor commands . It is widely believed that this process uses an internal model , which describes our prior beliefs about how the limb responds to motor comma... | The human brain is widely hypothesized to construct “inner beliefs” about how the world works . It is thought that we need this conception to coordinate our movements and anticipate rapid events that go on around us . A driver , for example , needs to predict how the car should behave in response to every turn of the s... | [
"Abstract",
"Introduction",
"Results",
"Discussion",
"Materials",
"and",
"methods"
] | [
"neuroscience"
] | 2015 | Internal models for interpreting neural population activity during sensorimotor control |
Prior experience accelerates acquisition of novel , related information through processes like assimilation into mental schemas , but the underlying neuronal mechanisms are poorly understood . We investigated the roles that prior experience and hippocampal CA3 N-Methyl-D-aspartate receptor ( NMDAR ) -dependent synaptic... | Learning is an inherent feature of the living animals . During development and childhood we learn a large repertoire of items that we encounter for the first time in our life , such as the names of things and how to perform certain tasks . This de novo learning process takes a relatively long time and generally require... | [
"Abstract",
"Introduction",
"Results",
"Discussion",
"Materials",
"and",
"methods"
] | [
"neuroscience"
] | 2013 | Development of schemas revealed by prior experience and NMDA receptor knock-out |
T cell expansion and differentiation are critically dependent on the transcription factor c-Myc ( Myc ) . Herein we use quantitative mass-spectrometry to reveal how Myc controls antigen receptor driven cell growth and proteome restructuring in murine T cells . Analysis of copy numbers per cell of >7000 proteins provide... | T cells are white blood cells that form an important part of our immune defence , acting to attack disease-causing microbes and cancer and directing other immune cells to help in this fight . T cells spend most of their time in a resting state , small and inactive , but when an infection strikes , they transform into l... | [
"Abstract",
"Introduction",
"Results",
"Discussion",
"Materials",
"and",
"methods"
] | [
"immunology",
"and",
"inflammation"
] | 2020 | Quantitative analysis of how Myc controls T cell proteomes and metabolic pathways during T cell activation |
Plants constantly renew during their life cycle and thus require to shed senescent and damaged organs . Floral abscission is controlled by the leucine-rich repeat receptor kinase ( LRR-RK ) HAESA and the peptide hormone IDA . It is unknown how expression of IDA in the abscission zone leads to HAESA activation . Here we... | Plants can shed their leaves , flowers or other organs when they no longer need them . But how does a leaf or a flower know when to let go ? A receptor protein called HAESA is found on the surface of the cells that surround a future break point on the plant . When its time to shed an organ , a hormone called IDA instru... | [
"Abstract",
"Introduction",
"Results",
"Discussion",
"Materials",
"and",
"methods"
] | [
"plant",
"biology",
"structural",
"biology",
"and",
"molecular",
"biophysics"
] | 2016 | Mechanistic insight into a peptide hormone signaling complex mediating floral organ abscission |
Disparate redox activities that take place beyond the bounds of the prokaryotic cell cytosol must connect to membrane or cytosolic electron pools . Proteins post-translationally flavinylated by the enzyme ApbE mediate electron transfer in several characterized extracytosolic redox systems but the breadth of functions o... | In bacteria , certain chemical reactions required for life do not take place directly inside the cells . For instance , ‘redox’ reactions essential to gather minerals , repair proteins and obtain energy are localised in the membranes and space that surround a bacterium . These chemical reactions involve electrons being... | [
"Abstract",
"Introduction",
"Results",
"Discussion",
"Materials",
"and",
"methods"
] | [
"biochemistry",
"and",
"chemical",
"biology"
] | 2021 | Post-translational flavinylation is associated with diverse extracytosolic redox functionalities throughout bacterial life |
Exosomes are small vesicles that are secreted from metazoan cells and may convey selected membrane proteins and small RNAs to target cells for the control of cell migration , development and metastasis . To study the mechanisms of RNA packaging into exosomes , we devised a purification scheme based on the membrane mark... | Human cells release molecules into their surroundings via membrane-bound packets called exosomes . These molecules can then circulate throughout the body and are protected from degradation . Among the cargos carried by exosomes are small molecules of RNA known as microRNAs , which are involved in regulating gene activi... | [
"Abstract",
"Introduction",
"Results",
"Discussion",
"Materials",
"and",
"methods"
] | [
"biochemistry",
"and",
"chemical",
"biology",
"cancer",
"biology"
] | 2016 | Y-box protein 1 is required to sort microRNAs into exosomes in cells and in a cell-free reaction |
How host and microbial factors combine to structure gut microbial communities remains incompletely understood . Redox potential is an important environmental feature affected by both host and microbial actions . We assessed how antibiotics , which can impact host and microbial function , change redox state and how this... | The gut is home to a large and diverse community of bacteria and other microbes , known as the gut microbiota . The makeup of this community is important for the health of both the host and its residents . For instance , many gut bacteria help to digest food or keep disease-causing bacteria in check . In return , the h... | [
"Abstract",
"Introduction",
"Results",
"Discussion",
"Materials",
"and",
"methods"
] | [
"microbiology",
"and",
"infectious",
"disease"
] | 2018 | Antibiotic-induced changes in the microbiota disrupt redox dynamics in the gut |
The perception and response to cellular death is an important aspect of multicellular eukaryotic life . For example , damage-associated molecular patterns activate an inflammatory cascade that leads to removal of cellular debris and promotion of healing . We demonstrate that lysis of Pseudomonas aeruginosa cells trigge... | Bacteria live in diverse and changing environments where resources such as nutrients and space are often limited . They have thus evolved many survival strategies , including competitive and cooperative behaviors . In the first case , bacteria antagonize or prevent the growth of other microorganisms competing with them... | [
"Abstract",
"Introduction",
"Results",
"Discussion",
"Materials",
"and",
"methods"
] | [
"microbiology",
"and",
"infectious",
"disease"
] | 2015 | Kin cell lysis is a danger signal that activates antibacterial pathways of Pseudomonas aeruginosa |
The general transcription factor TFIID comprises the TATA-box-binding protein ( TBP ) and approximately 14 TBP-associated factors ( TAFs ) . Here we find , unexpectedly , that undifferentiated human embryonic stem cells ( hESCs ) contain only six TAFs ( TAFs 2 , 3 , 5 , 6 , 7 and 11 ) , whereas following differentiatio... | Embryonic stem cells have two characteristic properties: they are able to differentiate into any type of cell , a property known as pluripotency , and they are able to replicate themselves indefinitely to produce an endless supply of new stem cells . Different genes code for the various proteins associated with these t... | [
"Abstract",
"Introduction",
"Results",
"Discussion",
"Materials",
"and",
"methods"
] | [
"chromosomes",
"and",
"gene",
"expression"
] | 2012 | Non-canonical TAF complexes regulate active promoters in human embryonic stem cells |
Collision avoidance is critical for survival , including in humans , and many species possess visual neurons exquisitely sensitive to objects approaching on a collision course . Here , we demonstrate that a collision-detecting neuron can detect the spatial coherence of a simulated impending object , thereby carrying ou... | Whether you are a flying insect or a driver on a freeway , your survival will depend on avoiding collisions . Many species have nerve cells or neurons within their visual system that respond to objects headed towards them on a collision course . In locusts , for example , a neuron called the lobula giant movement detec... | [
"Abstract",
"Introduction",
"Results",
"Discussion",
"Materials",
"and",
"methods"
] | [
"neuroscience"
] | 2018 | Biophysics of object segmentation in a collision-detecting neuron |
Small heat shock proteins ( sHSPs ) are essential ‘holdase’ chaperones that form large assemblies and respond dynamically to pH and temperature stresses to protect client proteins from aggregation . While the alpha-crystallin domain ( ACD ) dimer of sHSPs is the universal building block , how the ACD transmits structur... | Proteins are composed of one or more long chain-like molecules that must fold into complex three-dimensional shapes in order to work properly . Incorrectly folded proteins cannot function and often aggregate into toxic states that are associated with a number of neurological diseases including Alzheimer's , Huntington'... | [
"Abstract",
"Introduction",
"Results",
"Discussion",
"Materials",
"and",
"methods"
] | [
"biochemistry",
"and",
"chemical",
"biology",
"structural",
"biology",
"and",
"molecular",
"biophysics"
] | 2015 | A conserved histidine modulates HSPB5 structure to trigger chaperone activity in response to stress-related acidosis |
The level of copy number alteration ( CNA ) , termed CNA burden , in the tumor genome is associated with recurrence of primary prostate cancer . Whether CNA burden is associated with prostate cancer survival or outcomes in other cancers is unknown . We analyzed the CNA landscape of conservatively treated prostate cance... | Cancer cells carry different types of mutations that are associated with the cell starting to multiply uncontrollably . Certain changes only affect one or a few letters of the genetic code . Others , known as copy number alterations , or CNA , involve larger portions of the genome that can either be lost ( deletions ) ... | [
"Abstract",
"Introduction",
"Results",
"Discussion",
"Materials",
"and",
"methods"
] | [
"medicine",
"cancer",
"biology"
] | 2018 | Tumor copy number alteration burden is a pan-cancer prognostic factor associated with recurrence and death |
Fidaxomicin ( Fdx ) is an antimicrobial RNA polymerase ( RNAP ) inhibitor highly effective against Mycobacterium tuberculosis RNAP in vitro , but clinical use of Fdx is limited to treating Clostridium difficile intestinal infections due to poor absorption . To identify the structural determinants of Fdx binding to RNAP... | Tuberculosis ( TB ) is an infectious disease that affects over ten million people every year . The Mycobacterium tuberculosis bacteria that cause the disease spread through the air from one person to another and mainly infect the lungs . Although curable , TB is difficult to eradicate because it is remarkably widesprea... | [
"Abstract",
"Introduction",
"Results",
"Discussion",
"Materials",
"and",
"methods"
] | [
"structural",
"biology",
"and",
"molecular",
"biophysics"
] | 2018 | Fidaxomicin jams Mycobacterium tuberculosis RNA polymerase motions needed for initiation via RbpA contacts |
Pioneer transcription factors recognise and bind their target sequences in inaccessible chromatin to establish new transcriptional networks throughout development and cellular reprogramming . During this process , pioneer factors establish an accessible chromatin state to facilitate additional transcription factor bind... | All cells in your body contain the same genetic information in the form of genes encoded within DNA . Yet , cells use this information in different ways so that the activities of individual genes within that DNA can vary from cell to cell . This allows identical cells to become different to each other and to adapt to c... | [
"Abstract",
"Introduction",
"Results",
"Discussion",
"Materials",
"and",
"methods"
] | [
"stem",
"cells",
"and",
"regenerative",
"medicine",
"chromosomes",
"and",
"gene",
"expression"
] | 2017 | The pioneer factor OCT4 requires the chromatin remodeller BRG1 to support gene regulatory element function in mouse embryonic stem cells |
The simultaneous imaging and manipulating of neural activity could enable the functional dissection of neural circuits . Here we have combined two-photon optogenetics with simultaneous volumetric two-photon calcium imaging to measure and manipulate neural activity in mouse neocortex in vivo in three-dimensions ( 3D ) w... | Modern microscopy provides a window into the brain . The first light microscopes were able to magnify cells only in thin slices of tissue . By contrast , today’s light microscopes can image cells below the surface of the brain of a living animal . Even so , this remains challenging for several reasons . One is that the... | [
"Abstract",
"Introduction",
"Results",
"Discussion",
"Materials",
"and",
"methods"
] | [
"tools",
"and",
"resources",
"neuroscience"
] | 2018 | Simultaneous two-photon imaging and two-photon optogenetics of cortical circuits in three dimensions |
During transcription elongation , RNA polymerase has been assumed to attain equilibrium between pre- and post-translocated states rapidly relative to the subsequent catalysis . Under this assumption , recent single-molecule studies proposed a branched Brownian ratchet mechanism that necessitates a putative secondary nu... | The production of a protein inside a cell starts with a region of the DNA inside the cell nucleus being transcribed to form a molecule of messenger RNA . This process involves an enzyme called RNA polymerase that moves along the DNA , reading the bases and making a complementary strand of messenger RNA from molecules c... | [
"Abstract",
"Introduction",
"Results",
"Discussion",
"Materials",
"and",
"methods"
] | [
"structural",
"biology",
"and",
"molecular",
"biophysics"
] | 2013 | Complete dissection of transcription elongation reveals slow translocation of RNA polymerase II in a linear ratchet mechanism |
Feeding and oviposition deterrents help phytophagous insects to identify host plants . The taste organs of phytophagous insects contain bitter gustatory receptors ( GRs ) . To explore their function , the GRs in Plutella xylostella were analyzed . Through RNA sequencing and qPCR , we detected abundant PxylGr34 transcri... | Plant-eating insects use their sense of taste to decide where to feed and where to lay their eggs . They do this using taste sensors called gustatory receptors which reside in the antennae and legs of adults , and in the mouthparts of larvae . Some of these sensors detect sugars which signal to the insect that the plan... | [
"Abstract",
"Introduction",
"Results",
"Discussion",
"Materials",
"and",
"methods"
] | [
"ecology"
] | 2020 | A gustatory receptor tuned to the steroid plant hormone brassinolide in Plutella xylostella (Lepidoptera: Plutellidae) |
Coat protein complex II ( COPII ) mediates formation of the membrane vesicles that export newly synthesised proteins from the endoplasmic reticulum . The inner COPII proteins bind to cargo and membrane , linking them to the outer COPII components that form a cage around the vesicle . Regulated flexibility in coat archi... | Proteins often need to move between different compartments within cells . To do this they are packaged into transport pods called vesicles . Many trafficked proteins are synthesized in an organelle called the endoplasmic reticulum , or ER; these proteins are transported away from the ER in ‘COPII’ vesicles , which are ... | [
"Abstract",
"Introduction",
"Results",
"and",
"discussion",
"Materials",
"and",
"methods"
] | [
"biochemistry",
"and",
"chemical",
"biology",
"structural",
"biology",
"and",
"molecular",
"biophysics"
] | 2013 | The structure of the COPII transport-vesicle coat assembled on membranes |
Sprouting angiogenesis is a well-coordinated process controlled by multiple extracellular inputs , including vascular endothelial growth factor ( VEGF ) . However , little is known about when and how individual endothelial cell ( EC ) responds to angiogenic inputs in vivo . Here , we visualized endothelial Ca2+ dynamic... | Throughout life , new blood vessels grow out like branches from existing vessels in a process called “sprouting angiogenesis” . This involves some of the endothelial cells that line the inner surface of the blood vessel migrating outwards , creating a vessel sprout made up of tip cells and stalk cells . Sprouting is co... | [
"Abstract",
"Introduction",
"Results",
"Discussion",
"Materials",
"and",
"methods"
] | [
"developmental",
"biology"
] | 2015 | Endothelial Ca2+ oscillations reflect VEGFR signaling-regulated angiogenic capacity in vivo |
Neutralizing antibodies elicited by prior infection or vaccination are likely to be key for future protection of individuals and populations against SARS-CoV-2 . Moreover , passively administered antibodies are among the most promising therapeutic and prophylactic anti-SARS-CoV-2 agents . However , the degree to which ... | The new coronavirus , SARS-CoV-2 , which causes the disease COVID-19 , has had a serious worldwide impact on human health . The virus was virtually unknown at the beginning of 2020 . Since then , intense research efforts have resulted in sequencing the coronavirus genome , identifying the structures of its proteins , a... | [
"Abstract",
"Introduction",
"Results",
"Discussion",
"Materials",
"and",
"methods"
] | [
"microbiology",
"and",
"infectious",
"disease",
"immunology",
"and",
"inflammation"
] | 2020 | Escape from neutralizing antibodies by SARS-CoV-2 spike protein variants |
Domesticated animals experienced profound changes in diet , environment , and social interactions that likely shaped their gut microbiota and were potentially analogous to ecological changes experienced by humans during industrialization . Comparing the gut microbiota of wild and domesticated mammals plus chimpanzees a... | Living inside our gastrointestinal tracts is a large and diverse community of bacteria called the gut microbiota that plays an active role in basic body processes like metabolism and immunity . Much of our current understanding of the gut microbiota has come from laboratory animals like mice , which have very different... | [
"Abstract",
"Introduction",
"Results",
"Discussion",
"Materials",
"and",
"methods"
] | [
"ecology",
"evolutionary",
"biology"
] | 2021 | Effects of domestication on the gut microbiota parallel those of human industrialization |
Pneumococcal whole cell vaccines ( WCVs ) could cost-effectively protect against a greater strain diversity than current capsule-based vaccines . Immunoglobulin G ( IgG ) responses to a WCV were characterised by applying longitudinally-sampled sera , available from 35 adult placebo-controlled phase I trial participants... | Streptococcus pneumoniae is a bug that causes pneumonia and meningitis , killing around a million people each year . Vaccines now exist to protect young children against these diseases , but they are expensive and do not work against all the strains of the bacteria . This is because these shots train the body’s immune ... | [
"Abstract",
"Introduction",
"Results",
"Discussion",
"Materials",
"and",
"methods"
] | [
"microbiology",
"and",
"infectious",
"disease",
"immunology",
"and",
"inflammation"
] | 2018 | Panproteome-wide analysis of antibody responses to whole cell pneumococcal vaccination |
DNA is a remarkably precise medium for copying and storing biological information . This high fidelity results from the action of hundreds of genes involved in replication , proofreading , and damage repair . Evolutionary theory suggests that in such a system , selection has limited ability to remove genetic variants t... | DNA is a molecule that contains the information needed to build an organism . This information is stored as a code made up of four chemicals: adenine ( A ) , guanine ( G ) , cytosine ( C ) , and thymine ( T ) . Every time a cell divides and copies its DNA , it accidentally introduces ‘typos’ into the code , known as mu... | [
"Abstract",
"Introduction",
"Results",
"Discussion",
"Materials",
"and",
"methods"
] | [
"evolutionary",
"biology"
] | 2017 | Rapid evolution of the human mutation spectrum |
Chronic infection perturbs immune homeostasis . While prior studies have reported dysregulation of effector and memory cells , little is known about the effects on naïve T cell populations . We performed a cross-sectional study of chronic hepatitis C ( cHCV ) patients using tetramer-associated magnetic enrichment to st... | Long-lasting or “chronic” infections massively perturb the immune system as a way to favor their own growth . In particular , they can stop T cells – a subtype of immune cells that help to destroy viruses – from working well . For example , HIV and hepatitis C viruses can overwork T cells and cause them to die . This c... | [
"Abstract",
"Introduction",
"Results",
"Discussion",
"Materials",
"and",
"methods"
] | [
"immunology",
"and",
"inflammation"
] | 2015 | Bystander hyperactivation of preimmune CD8+ T cells in chronic HCV patients |
Morphogen gradients expose cells to different signal concentrations and induce target genes with different ranges of expression . To determine how the Nodal morphogen gradient induces distinct gene expression patterns during zebrafish embryogenesis , we measured the activation dynamics of the signal transducer Smad2 an... | How a cell can tell where it is in a developing embryo has fascinated scientists for decades . The pioneering computer scientist and mathematical biologist Alan Turing was the first person to coin the term ‘morphogen’ to describe a protein that provides information about locations in the body . A morphogen is released ... | [
"Abstract",
"Introduction",
"Results",
"Discussion",
"Materials",
"and",
"methods"
] | [
"developmental",
"biology"
] | 2015 | Response to Nodal morphogen gradient is determined by the kinetics of target gene induction |
Chemokines are secreted proteins that regulate a range of processes in eukaryotic organisms . Interestingly , different chemokine receptors control distinct biological processes , and the same receptor can direct different cellular responses , but the basis for this phenomenon is not known . To understand this property... | Every process in the body is regulated by a complex network of interactions between different molecules and cells . Chemokines , for example , are tiny molecules produced by a cell that are involved in a range of processes , from development to immune responses and cancer . When chemokines bind to a specific protein on... | [
"Abstract",
"Introduction",
"Results",
"Discussion",
"Materials",
"and",
"methods"
] | [
"developmental",
"biology",
"immunology",
"and",
"inflammation"
] | 2018 | Spatio-temporal regulation of concurrent developmental processes by generic signaling downstream of chemokine receptors |
We have developed an open-source software called bi-channel image registration and deep-learning segmentation ( BIRDS ) for the mapping and analysis of 3D microscopy data and applied this to the mouse brain . The BIRDS pipeline includes image preprocessing , bi-channel registration , automatic annotation , creation of ... | Mapping all the cells and nerve connections in the mouse brain is a major goal of the neuroscience community , as this will provide new insights into how the brain works and what happens during disease . To achieve this , researchers must first capture three-dimensional images of the brain . These images are then proce... | [
"Abstract",
"Introduction",
"Results",
"Discussion",
"Materials",
"and",
"methods"
] | [
"computational",
"and",
"systems",
"biology",
"neuroscience"
] | 2021 | Bi-channel image registration and deep-learning segmentation (BIRDS) for efficient, versatile 3D mapping of mouse brain |
Hippocampal firing is organized in theta sequences controlled by internal memory processes and by external sensory cues , but how these computations are coordinated is not fully understood . Although theta activity is commonly studied as a unique coherent oscillation , it is the result of complex interactions between d... | In the brain , a vast number of neurons coordinate their activity to support complex cognitive processes . One of the best places to see this in action is the hippocampus , a brain structure with a key role in memory and navigation . The hippocampus shows waves of electrical activity , which represent the synchronized ... | [
"Abstract",
"Introduction",
"Results",
"Discussion",
"Materials",
"and",
"methods"
] | [
"neuroscience"
] | 2020 | Different theta frameworks coexist in the rat hippocampus and are coordinated during memory-guided and novelty tasks |
Gastrulation generates three layers of cells ( ectoderm , mesoderm , endoderm ) from a single sheet , while large scale cell movements occur across the entire embryo . In amniote ( reptiles , birds , mammals ) embryos , the deep layers arise by epithelial-to-mesenchymal transition ( EMT ) at a morphologically stable mi... | A key process during the development of an embryo involves a single layer of cells reorganizing into three ‘germ layers’: the ectoderm , which becomes the skin and nervous system; the mesoderm , which gives rise to the skeleton , muscles and the circulatory and urinogenital systems , and the endoderm , which gives rise... | [
"Abstract",
"Introduction",
"Results",
"Discussion",
"Materials",
"and",
"methods"
] | [
"developmental",
"biology"
] | 2014 | Local cell interactions and self-amplifying individual cell ingression drive amniote gastrulation |
Signaling pathways often transmit multiple signals through a single shared transcription factor ( TF ) and encode signal information by differentially regulating TF dynamics . However , signal information will be lost unless it can be reliably decoded by downstream genes . To understand the limits on dynamic informatio... | The way that a cell responds to an external stimulus is governed by a sequence of events called a signalling pathway . While cells are exposed to a wide range of external stimuli—such as different types of chemicals and different forms of radiation—the last stage of the signalling pathway usually involves a gene being ... | [
"Abstract",
"Introduction",
"Results",
"Discussion",
"Materials",
"and",
"methods"
] | [
"cell",
"biology",
"computational",
"and",
"systems",
"biology"
] | 2015 | Limits on information transduction through amplitude and frequency regulation of transcription factor activity |
Adenosine triphosphate ( ATP ) , the chemical energy currency of biology , is synthesized in eukaryotic cells primarily by the mitochondrial ATP synthase . ATP synthases operate by a rotary catalytic mechanism where proton translocation through the membrane-inserted FO region is coupled to ATP synthesis in the catalyti... | A molecule called adenosine triphosphate ( ATP ) is the energy currency in cells . Most of the ATP used by cells is made by the membrane-embedded enzyme ATP synthase . This enzyme is found in membranes inside specialized compartments known as mitochondria . ATP synthase is made up of many protein subunits that work tog... | [
"Abstract",
"Introduction",
"Results",
"Discussion",
"Materials",
"and",
"methods"
] | [
"biochemistry",
"and",
"chemical",
"biology",
"structural",
"biology",
"and",
"molecular",
"biophysics"
] | 2015 | Structure and conformational states of the bovine mitochondrial ATP synthase by cryo-EM |
Novel regenerative therapies may stem from deeper understanding of the mechanisms governing cardiovascular lineage diversification . Using enhancer mapping and live imaging in avian embryos , and genetic lineage tracing in mice , we investigated the spatio-temporal dynamics of cardiovascular progenitor populations . We... | As an animal embryo develops , it establishes a circulatory system that includes the heart , vessels and blood . Vessels and blood initially form in the yolk sac , a membrane that surrounds the embryo . These yolk sac vessels act as a rudimentary circulatory system , connecting to the heart and blood vessels within the... | [
"Abstract",
"Introduction",
"Results",
"Discussion",
"Materials",
"and",
"methods"
] | [
"developmental",
"biology"
] | 2017 | Nkx2.5 marks angioblasts that contribute to hemogenic endothelium of the endocardium and dorsal aorta |
Centrioles are microtubule-based organelles crucial for cell division , sensing and motility . In Caenorhabditis elegans , the onset of centriole formation requires notably the proteins SAS-5 and SAS-6 , which have functional equivalents across eukaryotic evolution . Whereas the molecular architecture of SAS-6 and its ... | Most animal cells contain structures known as centrioles . Typically , a cell that is not dividing contains a pair of centrioles . But when a cell prepares to divide , the centrioles are duplicated . The two pairs of centrioles then organize the scaffolding that shares the genetic material equally between the newly for... | [
"Abstract",
"Introduction",
"Results",
"Discussion",
"Materials",
"and",
"methods"
] | [
"cell",
"biology",
"structural",
"biology",
"and",
"molecular",
"biophysics"
] | 2015 | The Caenorhabditis elegans protein SAS-5 forms large oligomeric assemblies critical for centriole formation |
CaV1 . 3 channels regulate excitability in many neurons . As is the case for all voltage-gated channels , it is widely assumed that individual CaV1 . 3 channels behave independently with respect to voltage-activation , open probability , and facilitation . Here , we report the results of super-resolution imaging , opto... | The electrical charge inside a cell is different from that outside of the cell . Neurons rely on this difference to send signals via electrical impulses . This process involves ions moving across the neuron’s membrane through proteins called ion channels . Cav1 . 3 channels are ion channels that open when the membrane’... | [
"Abstract",
"Introduction",
"Results",
"Discussion",
"Materials",
"and",
"methods"
] | [
"structural",
"biology",
"and",
"molecular",
"biophysics",
"neuroscience"
] | 2016 | Ca2+ entry into neurons is facilitated by cooperative gating of clustered CaV1.3 channels |
Aneuploidy causes severe developmental defects and is a near universal feature of tumor cells . Despite its profound effects , the cellular processes affected by aneuploidy are not well characterized . Here , we examined the consequences of aneuploidy on the proteome of aneuploid budding yeast strains . We show that al... | Nearly all tumor cells contain abnormal number of chromosomes . This state is called aneuploidy , and can also cause embryos to be miscarried , or to be born with severe developmental disorders . Proteins are produced from the genes contained within chromosomes , and so cells with too many chromosomes produce too many ... | [
"Abstract",
"Introduction",
"Results",
"Discussion",
"Material",
"and",
"methods"
] | [
"chromosomes",
"and",
"gene",
"expression",
"cell",
"biology"
] | 2014 | Quantitative proteomic analysis reveals posttranslational responses to aneuploidy in yeast |
Hippocampal place cells encode an animal's past , current , and future location through sequences of action potentials generated within each cycle of the network theta rhythm . These sequential representations have been suggested to result from temporally coordinated synaptic interactions within and between cell assemb... | When we explore a new place , we naturally create a mental map of the location as we go . This mental map is stored in a region of the brain called the hippocampus , which contains cells called place cells . These cells can carry information about our past , present , and future location in the form of electrical signa... | [
"Abstract",
"Introduction",
"Results",
"Discussion",
"Materials",
"and",
"methods"
] | [
"neuroscience"
] | 2015 | Independent theta phase coding accounts for CA1 population sequences and enables flexible remapping |
When pathogens enter the host , sensing of environmental cues activates the expression of virulence genes . Opposite transition of pathogens from activating to non-activating conditions is poorly understood . Interestingly , variability in the expression of virulence genes upon infection enhances colonization . In orde... | Bacteria typically cope with harsh and changing environments by activating specific genes or accumulating those mutations that change genes in a beneficial way . Recently , it was also shown that the levels of gene activity can vary between otherwise identical bacteria in a single population . This provides an alternat... | [
"Abstract",
"Introduction",
"Results",
"Discussion",
"Materials",
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] | [
"computational",
"and",
"systems",
"biology",
"microbiology",
"and",
"infectious",
"disease"
] | 2017 | A long-term epigenetic memory switch controls bacterial virulence bimodality |
Single-cell transcriptomes are established by transcription factors ( TFs ) , which determine a cell's gene-expression complement . Post-transcriptional regulation of single-cell transcriptomes , and the RNA binding proteins ( RBPs ) responsible , are more technically challenging to determine , and combinatorial TF-RBP... | All the cells in the human nervous system contain the same genetic information , and yet there are many kinds of neurons , each with different features and roles in the body . Proteins known as transcription factors help to establish this diversity by switching on different genes in different types of cells . A mechani... | [
"Abstract",
"Introduction",
"Results",
"Discussion",
"Materials",
"and",
"methods"
] | [
"developmental",
"biology",
"genetics",
"and",
"genomics"
] | 2019 | Splicing in a single neuron is coordinately controlled by RNA binding proteins and transcription factors |
Hallucinations occur in both normal and clinical populations . Due to their unpredictability and complexity , the mechanisms underlying hallucinations remain largely untested . Here we show that visual hallucinations can be induced in the normal population by visual flicker , limited to an annulus that constricts conte... | Hallucinations can occur in both healthy and unwell people . Drugs , sleep deprivation , loss of vision , and migraines can all trigger visual hallucinations in people with no psychiatric illness . We have known for more than 200 years that flickering light can induce hallucinations in almost anyone . However , the unp... | [
"Abstract",
"Introduction",
"Results",
"Discussion",
"Materials",
"and",
"methods"
] | [
"neuroscience"
] | 2016 | Sensory dynamics of visual hallucinations in the normal population |
Inserted ( I ) domains function as ligand-binding domains in adhesins that support cell adhesion and migration in many eukaryotic phyla . These adhesins include integrin αβ heterodimers in metazoans and single subunit transmembrane proteins in apicomplexans such as TRAP in Plasmodium and MIC2 in Toxoplasma . Here we sh... | Malaria is an infectious disease caused by single-celled parasites known as Plasmodium . Humans and other animals with backbones – such as birds , reptiles and rodents – can become hosts for these parasites if an infected female mosquito feeds on their blood . Likewise , healthy mosquitoes can in turn become infected w... | [
"Abstract",
"Introduction",
"Results",
"Discussion",
"Materials",
"and",
"methods"
] | [
"microbiology",
"and",
"infectious",
"disease"
] | 2020 | Evolutionarily distant I domains can functionally replace the essential ligand-binding domain of Plasmodium TRAP |
The robust representation of the environment from unreliable sensory cues is vital for the efficient function of the brain . However , how the neural processing captures the most reliable cues is unknown . The interaural time difference ( ITD ) is the primary cue to localize sound in horizontal space . ITD is encoded i... | The ability to locate where a sound is coming from is an essential survival skill for both prey and predator species . A major cue used by the brain to infer the sound's location is the difference in arrival time of the sound at the left and right ears; for example , a sound coming from the left side will reach the lef... | [
"Abstract",
"Introduction",
"Results",
"Discussion",
"Materials",
"and",
"methods"
] | [
"neuroscience"
] | 2014 | Spatial cue reliability drives frequency tuning in the barn Owl's midbrain |
Regulation of animal development in response to nutritional cues is an intensely studied problem related to disease and aging . While extensive studies indicated roles of the Target of Rapamycin ( TOR ) in sensing certain nutrients for controlling growth and metabolism , the roles of fatty acids and lipids in TOR-invol... | Animals require nutrients , including carbohydrates , lipids , and amino acids , for development and growth , and to maintain the normal functioning of cells . However , in most natural environments , the availability of food tends to fluctuate . Some animals have therefore acquired the ability to dramatically reduce t... | [
"Abstract",
"Introduction",
"Results",
"Discussion",
"Materials",
"and",
"methods"
] | [
"developmental",
"biology"
] | 2013 | A novel sphingolipid-TORC1 pathway critically promotes postembryonic development in Caenorhabditis elegans |
Biological membranes create compartments , and are usually formed by lipid bilayers . However , in hyperthermophilic archaea that live optimally at temperatures above 80°C the membranes are monolayers which resemble fused bilayers . Many double-stranded DNA viruses which parasitize such hosts , including the filamentou... | Virtually every environment on the planet is home to some form of life , even places that , at first glance , appear to be too harsh for any organism to survive in . For example , a microscopic organism known as Acidianus hospitalis thrives in highly acidic environments that are hotter than 80°C , conditions that would... | [
"Abstract",
"Introduction",
"Results",
"Discussion",
"Materials",
"and",
"methods"
] | [
"structural",
"biology",
"and",
"molecular",
"biophysics"
] | 2017 | Model for a novel membrane envelope in a filamentous hyperthermophilic virus |
The adult mammalian brain is mainly composed of mature neurons . A limited amount of stem cell-driven neurogenesis persists in postnatal life and is reduced in large-brained species . Another source of immature neurons in adult brains is cortical layer II . These cortical immature neurons ( cINs ) retain developmentall... | To acquire new skills or recover after injuries , the mammalian brain relies on plasticity , the ability for the brain to change its architecture and its connections during the lifetime of an animal . Creating new nerve cells is one way to achieve plasticity , but this process is rarer in humans than it is in mammals w... | [
"Abstract",
"Introduction",
"Results",
"Discussion",
"Materials",
"and",
"methods"
] | [
"neuroscience"
] | 2020 | Phylogenetic variation in cortical layer II immature neuron reservoir of mammals |
Nanobodies are single-domain antibodies of camelid origin . We generated nanobodies against the vertebrate nuclear pore complex ( NPC ) and used them in STORM imaging to locate individual NPC proteins with <2 nm epitope-label displacement . For this , we introduced cysteines at specific positions in the nanobody sequen... | Antibodies not only protect humans and other animals against disease-causing bacteria and viruses . They can also be used as tools for medical diagnostics and basic research . Conventional antibodies consist of light and heavy protein chains , and both are required to bind to target molecules ( or antigens ) . Alpacas ... | [
"Abstract",
"Introduction",
"Results",
"Discussion",
"Methods"
] | [
"biochemistry",
"and",
"chemical",
"biology",
"cell",
"biology",
"tools",
"and",
"resources"
] | 2015 | Nanobodies: site-specific labeling for super-resolution imaging, rapid epitope-mapping and native protein complex isolation |
Transcriptional feedback loops are key to circadian clock function in many organisms . Current models of the Arabidopsis circadian network consist of several coupled feedback loops composed almost exclusively of transcriptional repressors . Indeed , a central regulatory mechanism is the repression of evening-phased clo... | We live in a world with a 24-hr cycle in which day follows night follows day with complete predictability . Life on earth has evolved to take advantage of this predictability by using circadian clocks to prepare for the coming of night ( or day ) , and plants are no exception . Even in constant darkness , characteristi... | [
"Abstract",
"Introduction",
"Results",
"Discussion",
"Materials",
"and",
"methods"
] | [
"plant",
"biology"
] | 2013 | Accurate timekeeping is controlled by a cycling activator in Arabidopsis |
Dopamine neurons are thought to encode novelty in addition to reward prediction error ( the discrepancy between actual and predicted values ) . In this study , we compared dopamine activity across the striatum using fiber fluorometry in mice . During classical conditioning , we observed opposite dynamics in dopamine ax... | New experiences trigger a variety of responses in animals . We are surprised by , move towards , and often explore new objects . But how does the brain control these responses ? Dopamine is a molecule that controls many processes in the brain and plays critical roles in various mental disorders , diseases that affect m... | [
"Abstract",
"Introduction",
"Results",
"Discussion",
"Materials",
"and",
"methods"
] | [
"neuroscience"
] | 2017 | Opposite initialization to novel cues in dopamine signaling in ventral and posterior striatum in mice |
Neural patterning involves regionalised cell specification . Recent studies indicate that cell dynamics play instrumental roles in neural pattern refinement and progression , but the impact of cell behaviour and morphogenesis on neural specification is not understood . Here we combine 4D analysis of cell behaviours wit... | The inner ear is responsible for our senses of hearing and balance , and is made up of a series of fluid-filled cavities . Sounds , and movements of the head , cause the fluid within these cavities to move . This activates neurons that line the cavities , causing them to increase their firing rates and pass on informat... | [
"Abstract",
"Introduction",
"Results",
"Discussion",
"Materials",
"and",
"methods"
] | [
"developmental",
"biology",
"neuroscience"
] | 2017 | Pioneer neurog1 expressing cells ingress into the otic epithelium and instruct neuronal specification |
Giant viruses are ecologically important players in aquatic ecosystems that have challenged concepts of what constitutes a virus . Herein , we present the giant Bodo saltans virus ( BsV ) , the first characterized representative of the most abundant group of giant viruses in ocean metagenomes , and the first isolate of... | In oceans , rivers and lakes , there are about a million viruses in every milliliter of water . Most of these viruses are tiny , often 10 or 100 times smaller than bacteria . However , a few reach a similar size and complexity to bacteria , and so stand out as relative giants . Relative to other viruses , Giant Viruses... | [
"Abstract",
"Introduction",
"Results",
"Discussion",
"Materials",
"and",
"methods"
] | [
"microbiology",
"and",
"infectious",
"disease"
] | 2018 | The kinetoplastid-infecting Bodo saltans virus (BsV), a window into the most abundant giant viruses in the sea |
Cerebellar granule cell progenitors ( GCP ) proliferate extensively in the external granule layer ( EGL ) of the developing cerebellum prior to differentiating and migrating . Mechanisms that regulate the appropriate timing of cell cycle withdrawal of these neuronal progenitors during brain development are not well def... | Many proteins control how cells are organised in your body . For example , a group of proteins called the neurotrophins help to control the life and death of brain cells . After a brain injury , neurotrophins can cause nerve cells to die by working together with another protein called p75NTR . The p75NTR protein is als... | [
"Abstract",
"Introduction",
"Results",
"Discussion",
"Materials",
"and",
"methods"
] | [
"cell",
"biology",
"neuroscience"
] | 2016 | Proneurotrophin-3 promotes cell cycle withdrawal of developing cerebellar granule cell progenitors via the p75 neurotrophin receptor |
How transcription factor dimerization impacts DNA-binding specificity is poorly understood . Guided by protein dimerization properties , we examined DNA binding specificities of 270 human bZIP pairs . DNA interactomes of 80 heterodimers and 22 homodimers revealed that 72% of heterodimer motifs correspond to conjoined h... | Most cells in our body contain the same DNA blueprint , which encodes all the genes needed for every process in the body . However , only certain genes need to be active in a particular cell at any given time . Proteins known as transcription factors control the activity of genes by binding to DNA near the start of the... | [
"Abstract",
"Introduction",
"Results",
"Discussion",
"Materials",
"and",
"methods"
] | [
"chromosomes",
"and",
"gene",
"expression",
"computational",
"and",
"systems",
"biology"
] | 2017 | Combinatorial bZIP dimers display complex DNA-binding specificity landscapes |
The transcription factor SOX2 is central in establishing and maintaining pluripotency . The processes that modulate SOX2 activity to promote pluripotency are not well understood . Here , we show SOX2 is O-GlcNAc modified in its transactivation domain during reprogramming and in mouse embryonic stem cells ( mESCs ) . Up... | Embryos develop from stem cells , which have the ability to mature into any type of cell in the body . The activity of proteins called transcription factors determines whether a stem cell will become a specialized cell type or remain in an immature “pluripotent” state that has the potential to become any cell type . Th... | [
"Abstract",
"Introduction",
"Results",
"Discussion",
"Materials",
"and",
"methods"
] | [
"stem",
"cells",
"and",
"regenerative",
"medicine",
"biochemistry",
"and",
"chemical",
"biology"
] | 2016 | SOX2 O-GlcNAcylation alters its protein-protein interactions and genomic occupancy to modulate gene expression in pluripotent cells |
Transcriptional gene silencing ( TGS ) can serve as an innate immunity against invading DNA viruses throughout Eukaryotes . Geminivirus code for TrAP protein to suppress the TGS pathway . Here , we identified an Arabidopsis H3K9me2 histone methyltransferase , Su ( var ) 3-9 homolog 4/Kryptonite ( SUVH4/KYP ) , as a bon... | Many viruses can infect plants and cause diseases that can reduce crop yields . The Geminiviruses are a family of plant viruses that are transmitted by insects and infect tomato , cabbage , and many other crop plants . These viruses hijack the plant cells that they infect and force the plant cells to make viral protein... | [
"Abstract",
"Introduction",
"Results",
"Discussion",
"Materials",
"and",
"methods"
] | [
"chromosomes",
"and",
"gene",
"expression",
"plant",
"biology"
] | 2015 | Geminivirus-encoded TrAP suppressor inhibits the histone methyltransferase SUVH4/KYP to counter host defense |
During transcription initiation , RNA polymerase ( RNAP ) binds to promoter DNA , unwinds promoter DNA to form an RNAP-promoter open complex ( RPo ) containing a single-stranded ‘transcription bubble , ’ and selects a transcription start site ( TSS ) . TSS selection occurs at different positions within the promoter reg... | Genes store the information needed to build and repair cells . This information is written in a chemical code within the structure of DNA molecules . To make use of the information , cells copy sections of a gene into a DNA-like molecule called RNA . An enzyme called RNA polymerase makes RNA molecules from DNA template... | [
"Abstract",
"Introduction",
"Results",
"and",
"discussion",
"Materials",
"and",
"methods"
] | [
"chromosomes",
"and",
"gene",
"expression",
"structural",
"biology",
"and",
"molecular",
"biophysics"
] | 2017 | The mechanism of variability in transcription start site selection |
Most age-related human diseases are accompanied by a decline in cellular organelle integrity , including impaired lysosomal proteostasis and defective mitochondrial oxidative phosphorylation . An open question , however , is the degree to which inherited variation in or near genes encoding each organelle contributes to... | Getting older increases our risk of experiencing a wide range of diseases , such as diabetes , heart disease and neurodegenerative disease . The genetic variations that we inherit from our parents play a major role in predicting this risk . However , the biological networks involved in this process are extremely comple... | [
"Abstract",
"Introduction",
"Results",
"Discussion",
"Materials",
"and",
"methods"
] | [
"genetics",
"and",
"genomics"
] | 2021 | Human genetic analyses of organelles highlight the nucleus in age-related trait heritability |
The fibroblast growth factor FGF21 was labeled with molecularly defined gold nanoparticles ( AuNPs ) , applied to human adipocytes , and imaged by cryo-electron tomography ( cryo-ET ) . Most AuNPs were in pairs about 80 Å apart , on the outer cell surface . Pairs of AuNPs were also abundant inside the cells in clathrin... | Following a molecule’s movement around a cell is a bit like looking for a needle in a haystack . Cells contain thousands of different components that can be difficult to distinguish between when viewed using a microscope . It helps to have a method to tag the molecule of interest to make it more easily visible . Electr... | [
"Abstract",
"Introduction",
"Results",
"Discussion",
"Materials",
"and",
"methods"
] | [
"structural",
"biology",
"and",
"molecular",
"biophysics",
"cell",
"biology",
"tools",
"and",
"resources"
] | 2019 | FGF21 trafficking in intact human cells revealed by cryo-electron tomography with gold nanoparticles |
The mutualistic endosymbiosis between cnidarians and dinoflagellates is mediated by complex inter-partner signaling events , where the host cnidarian innate immune system plays a crucial role in recognition and regulation of symbionts . To date , little is known about the diversity of thrombospondin-type-1 repeat ( TSR... | Cnidarians , such as corals and sea anemones , often form a close relationship with microscopic algae that live inside their cells – a partnership , on which the entire coral reef ecosystem depends . These microalgae produce sugars and other compounds that the cnidarians need to survive , while the cnidarians protect t... | [
"Abstract",
"Introduction",
"Results",
"Discussion",
"Materials",
"and",
"methods"
] | [
"ecology",
"microbiology",
"and",
"infectious",
"disease"
] | 2017 | A diverse host thrombospondin-type-1 repeat protein repertoire promotes symbiont colonization during establishment of cnidarian-dinoflagellate symbiosis |
Convergent evidence suggests that the basal ganglia support reinforcement learning by adjusting action values according to reward prediction errors . However , adaptive behavior in stochastic environments requires the consideration of uncertainty to dynamically adjust the learning rate . We consider how cholinergic ton... | One of the keys to successful learning is being able to adjust behavior on the basis of experience . In simple terms , it pays to repeat behaviors with positive outcomes and avoid those with negative outcomes . A group of brain regions known collectively as the basal ganglia supports this process by guiding behavior ba... | [
"Abstract",
"Introduction",
"Results",
"Discussion",
"Materials",
"and",
"methods"
] | [
"computational",
"and",
"systems",
"biology",
"neuroscience"
] | 2015 | A cholinergic feedback circuit to regulate striatal population uncertainty and optimize reinforcement learning |
During inflammation and infection , hematopoietic stem and progenitor cells are stimulated to proliferate and differentiate into mature immune cells , especially of the myeloid lineage . MicroRNA-146a ( miR-146a ) is a critical negative regulator of inflammation . Deletion of miR-146a produces effects that appear as dy... | Hematopoietic stem cells are cells that both renew themselves and develop into any type of blood cell , including red blood cells and the several classes of immune cells . When an injury or infection occurs , it is vital that hematopoietic stem cells replenish themselves in addition to developing into the new blood cel... | [
"Abstract",
"Introduction",
"Results",
"Discussion",
"Materials",
"and",
"methods"
] | [
"stem",
"cells",
"and",
"regenerative",
"medicine",
"immunology",
"and",
"inflammation"
] | 2013 | MicroRNA-146a acts as a guardian of the quality and longevity of hematopoietic stem cells in mice |
Multicellular development produces patterns of specialized cell types . Yet , it is often unclear how individual cells within a field of identical cells initiate the patterning process . Using live imaging , quantitative image analyses and modeling , we show that during Arabidopsis thaliana sepal development , fluctuat... | Plant and animal organs contain several types of cells that perform different roles . As a plant or animal develops , these different cell types can form intricate patterns . To start the pattern , a few cells within a group of identical cells must somehow become different from their neighbors . Some patterns of cells ... | [
"Abstract",
"Introduction",
"Results",
"Discussion",
"Materials",
"and",
"methods"
] | [
"plant",
"biology"
] | 2017 | Fluctuations of the transcription factor ATML1 generate the pattern of giant cells in the Arabidopsis sepal |
Exceptionally high rates of tooth fracture in large Pleistocene carnivorans imply intensified interspecific competition , given that tooth fracture rises with increased bone consumption , a behavior that likely occurs when prey are difficult to acquire . To assess the link between prey availability and dental attrition... | Gray wolves roam many European and American landscapes , where they prey on large animals such as elk and moose . A healthy dentition is essential for these predators to kill , eat and defend themselves . As a result , they tend to avoid biting down on tough body parts , such as bones , so that their teeth do not break... | [
"Abstract",
"Introduction",
"Results",
"Discussion",
"Materials",
"and",
"methods"
] | [
"ecology",
"evolutionary",
"biology"
] | 2019 | Tooth fracture frequency in gray wolves reflects prey availability |
The CRISPR-Cas9 bacterial surveillance system has become a versatile tool for genome editing and gene regulation in eukaryotic cells , yet how CRISPR-Cas9 contends with the barriers presented by eukaryotic chromatin is poorly understood . Here we investigate how the smallest unit of chromatin , a nucleosome , constrain... | CRISPR is a method of editing the genetic material inside living cells and has enabled dramatic advances in a broad variety of research fields in recent years . The method relies on a bacterial enzyme called Cas9 that can be programmed , via short guide molecules made from RNA , to target specific sites in the cell’s D... | [
"Abstract",
"Introduction",
"Results",
"Discussion",
"Materials",
"and",
"methods"
] | [
"chromosomes",
"and",
"gene",
"expression",
"short",
"report",
"biochemistry",
"and",
"chemical",
"biology"
] | 2016 | Nucleosome breathing and remodeling constrain CRISPR-Cas9 function |
The multi-domain splicing factor RBM5 regulates the balance between antagonistic isoforms of the apoptosis-control genes FAS/CD95 , Caspase-2 and AID . An OCRE ( OCtamer REpeat of aromatic residues ) domain found in RBM5 is important for alternative splicing regulation and mediates interactions with components of the U... | The information required to produce proteins is encoded within genes . In the first step of creating a protein , its gene is “transcribed” to form a pre-messenger RNA molecule ( called pre-mRNA for short ) . Both the gene and the pre-mRNA contain regions called exons that code for protein , and regions called introns t... | [
"Abstract",
"Introduction",
"Results",
"Discussion",
"Materials",
"and",
"methods",
"Accession",
"codes"
] | [
"biochemistry",
"and",
"chemical",
"biology",
"structural",
"biology",
"and",
"molecular",
"biophysics"
] | 2016 | Structural basis for the recognition of spliceosomal SmN/B/B’ proteins by the RBM5 OCRE domain in splicing regulation |
Following learning , increased coupling between spindle oscillations in the medial prefrontal cortex ( mPFC ) and ripple oscillations in the hippocampus is thought to underlie memory consolidation . However , whether learning-induced increases in ripple-spindle coupling are necessary for successful memory consolidation... | Sleep contributes to the strengthening of memories . During non-dreaming sleep , neurons in regions of the brain that form and store memories – such as the hippocampus and prefrontal cortex – fire in rhythmic waves . The neurons in the hippocampus tend to fire during a wave that repeats up to 250 times per second , cal... | [
"Abstract",
"Introduction",
"Results",
"Discussion",
"Materials",
"and",
"methods"
] | [
"neuroscience"
] | 2017 | Parvalbumin-positive interneurons mediate neocortical-hippocampal interactions that are necessary for memory consolidation |
Organizers play important roles during the embryonic development of many animals . The most famous example is the Spemann organizer that sets up embryonic axes in amphibian embryos . In spiders , a group of BMP secreting mesenchymal cells ( the cumulus ) functions as an organizer of the dorsoventral axis . Similar to e... | At the earliest stages of animal development , embryos consisting of only a handful of cells must figure out where each part of their body will come from . The first step in this process is to determine what will be their head versus their tail , and what will be their front versus their back . Many animals use special... | [
"Abstract",
"Introduction",
"Results",
"Discussion",
"Materials",
"and",
"methods"
] | [
"developmental",
"biology"
] | 2017 | A novel role for Ets4 in axis specification and cell migration in the spider Parasteatoda tepidariorum |
Cardiac neural crest cells contribute to important portions of the cardiovascular system including the aorticopulmonary septum and cardiac ganglion . Using replication incompetent avian retroviruses for precise high-resolution lineage analysis , we uncover a previously undescribed neural crest contribution to cardiomyo... | Before birth , unspecialized stem cells go through a process called differentiation to form the many types of cells found in the adult . Neural crest cells are a group of these stem cells found in all animals with backbones ( i . e . vertebrates ) including humans . These cells migrate extensively during development to... | [
"Abstract",
"Introduction",
"Results",
"Discussion",
"Materials",
"and",
"methods"
] | [
"developmental",
"biology",
"short",
"report"
] | 2019 | Cardiac neural crest contributes to cardiomyocytes in amniotes and heart regeneration in zebrafish |
The Drosophila midgut is maintained throughout its length by superficially similar , multipotent intestinal stem cells that generate new enterocytes and enteroendocrine cells in response to tissue requirements . We found that the midgut shows striking regional differentiation along its anterior-posterior axis . At leas... | Many cells in the body accumulate wear and tear over time , and a fraction of them are always nearing the end of their lives . However , in some tissues there are stem cells that can divide into daughter cells which then differentiate and replace the damaged cells . Unlike embryonic stem cells , these ‘adult tissue ste... | [
"Abstract",
"Introduction",
"Results",
"Discussion",
"Materials",
"and",
"methods"
] | [
"stem",
"cells",
"and",
"regenerative",
"medicine"
] | 2013 | Physiological and stem cell compartmentalization within the Drosophila midgut |
Passage through mitosis is driven by precisely-timed changes in transcriptional regulation and protein degradation . However , the importance of translational regulation during mitosis remains poorly understood . Here , using ribosome profiling , we find both a global translational repression and identified ∼200 mRNAs ... | The human body contains billions of cells , most of which formed via a process called mitosis in which a single cell divides to produce two new daughter cells . Actively dividing cells pass through a series of events ( or phases ) that are collectively known as the cell cycle . These phases allow the cell to grow in si... | [
"Abstract",
"Introduction",
"Results",
"Discussion",
"Materials",
"and",
"methods"
] | [
"cell",
"biology",
"computational",
"and",
"systems",
"biology"
] | 2015 | Regulation of mRNA translation during mitosis |
Regulation of cell wall assembly is essential for bacterial survival and contributes to pathogenesis and antibiotic tolerance in Mycobacterium tuberculosis ( Mtb ) . However , little is known about how the cell wall is regulated in stress . We found that CwlM , a protein homologous to peptidoglycan amidases , coordinat... | Bacterial cells are surrounded by a protective cell wall . Some bacteria , including the species Mycobacterium tuberculosis that causes tuberculosis , have the ability to change the properties of their cell wall when exposed to stressful conditions . These changes may also help the bacteria to resist the antibiotics us... | [
"Abstract",
"Introduction",
"Results",
"Discussion",
"Materials",
"and",
"methods"
] | [
"biochemistry",
"and",
"chemical",
"biology",
"microbiology",
"and",
"infectious",
"disease"
] | 2016 | A cytoplasmic peptidoglycan amidase homologue controls mycobacterial cell wall synthesis |
Notch is a critical regulator of T cell differentiation and is activated through proteolytic cleavage in response to ligand engagement . Using murine myelin-reactive CD4 T cells , we demonstrate that proximal T cell signaling modulates Notch activation by a spatiotemporally constrained mechanism . The protein kinase PK... | The body’s immune system recognizes and responds to foreign agents such as bacteria and viruses . Immune cells known as T cells recognize foreign substances through a protein on their surface called the T cell receptor . Specifically , the T cell receptor binds to fragments of foreign proteins displayed on the surface ... | [
"Abstract",
"Introduction",
"Results",
"and",
"discussion",
"Materials",
"and",
"methods"
] | [
"short",
"report",
"cell",
"biology",
"immunology",
"and",
"inflammation"
] | 2017 | PKCθ links proximal T cell and Notch signaling through localized regulation of the actin cytoskeleton |
Store-operated calcium entry ( SOCE ) by calcium release activated calcium ( CRAC ) channels constitutes a primary route of calcium entry in most cells . Orai1 forms the pore subunit of CRAC channels and Stim1 is the endoplasmic reticulum ( ER ) resident Ca2+ sensor . Upon store-depletion , Stim1 translocates to domain... | Calcium is an essential element for many biological functions . In particular , the movement of calcium ions through the cell membrane has a central role in many of the signalling pathways that cells use to communicate with other cells . Signals are produced by calcium ions both entering and leaving the cell , with inf... | [
"Abstract",
"Introduction",
"Results",
"Discussion",
"Materials",
"and",
"methods"
] | [
"cell",
"biology"
] | 2013 | An essential and NSF independent role for α-SNAP in store-operated calcium entry |
The brain displays a remarkable ability to adapt following injury by altering its connections through neural plasticity . Many of the biological mechanisms that underlie plasticity are known , but there is little knowledge as to when , or where in the brain plasticity will occur following injury . This knowledge could ... | The brain has the ability to adapt after injury , a process known as plasticity . When one area sustains damage , for example following a car accident or stroke , other areas change their activity and structure to compensate . Understanding how this happens is critical to helping people recover from brain injuries . Ce... | [
"Abstract",
"Introduction",
"Results",
"Discussion",
"Materials",
"and",
"methods"
] | [
"neuroscience"
] | 2018 | Macro-connectomics and microstructure predict dynamic plasticity patterns in the non-human primate brain |
In several neurodegenerative diseases and myelin disorders , the degeneration profiles of myelinated axons are compatible with underlying energy deficits . However , it is presently impossible to measure selectively axonal ATP levels in the electrically active nervous system . We combined transgenic expression of an AT... | The brain contains an intricate network of nerve cells that receive , process , send and store information . This information travels as electrical impulses along a long , thin part of each nerve cell known as the nerve fiber or axon . The act of sending these electrical signals requires a lot of energy , and energy in... | [
"Abstract",
"Introduction",
"Results",
"Discussion",
"Materials",
"and",
"methods"
] | [
"neuroscience"
] | 2017 | Monitoring ATP dynamics in electrically active white matter tracts |
Over 170 different mutations in the gene encoding SOD1 all cause amyotrophic lateral sclerosis ( ALS ) . Available studies have been primarily focused on the mechanisms underlying mutant SOD1 cytotoxicity . How cells defend against the cytotoxicity remains largely unknown . Here , we show that misfolding of ALS-linked ... | Amyotrophic lateral sclerosis ( ALS ) is a disease that leads to muscle weakness and paralysis . The symptoms become progressively worse over time to the point that patients die because they become unable to breathe . Over 170 different genetic mistakes ( or mutations ) in a gene that encodes a protein called SOD1 are ... | [
"Abstract",
"Introduction",
"Results",
"Discussion",
"Materials",
"and",
"methods"
] | [
"cell",
"biology"
] | 2017 | Nuclear export of misfolded SOD1 mediated by a normally buried NES-like sequence reduces proteotoxicity in the nucleus |
Low-density lipoprotein receptor-related protein 1 ( LRP1 ) is a multifunctional cell surface receptor with diverse physiological roles , ranging from cellular uptake of lipoproteins and other cargo by endocytosis to sensor of the extracellular environment and integrator of a wide range of signaling mechanisms . As a c... | Atherosclerosis is a disease in which “plaques” build up inside the walls of arteries . Plaques consist of a fatty substance called cholesterol , together with immune cells such as macrophages and other material from the blood . Over time , the plaque narrows and hardens the arteries . This restricts the flow of blood ... | [
"Abstract",
"Introduction",
"Results",
"Discussion",
"Materials",
"and",
"methods"
] | [
"cell",
"biology"
] | 2017 | LRP1 integrates murine macrophage cholesterol homeostasis and inflammatory responses in atherosclerosis |
Emerging evidence points to an unexpected diversification of core promoter recognition complexes that serve as important regulators of cell-type specific gene transcription . Here , we report that the orphan TBP-associated factor TAF9B is selectively up-regulated upon in vitro motor neuron differentiation , and is requ... | Almost all the cells in an organism contain the same genetic information , but they develop into many different types of cells that perform a variety of specialized functions in the body . Brain cells , for example , have a very different shape and function from red blood cells . A small group of proteins act inside ce... | [
"Abstract",
"Introduction",
"Results",
"Discussion",
"Materials",
"and",
"methods"
] | [
"chromosomes",
"and",
"gene",
"expression",
"developmental",
"biology"
] | 2014 | Core promoter factor TAF9B regulates neuronal gene expression |
Gene transcription can be activated by decreasing the duration of RNA polymerase II pausing in the promoter-proximal region , but how this is achieved remains unclear . Here we use a ‘multi-omics’ approach to demonstrate that the duration of polymerase pausing generally limits the productive frequency of transcription ... | Genes can contain the coded instructions to make proteins . These instructions must first be copied , or transcribed , into an intermediate molecule called a messenger RNA by an enzyme known as RNA polymerase II . Shortly after it begins , this enzyme – which is called Pol II for short – pauses , and it only starts aga... | [
"Abstract",
"Introduction",
"Results",
"Discussion",
"Materials",
"and",
"methods"
] | [
"computational",
"and",
"systems",
"biology"
] | 2017 | CDK9-dependent RNA polymerase II pausing controls transcription initiation |
Rodents are emerging as increasingly popular models of visual functions . Yet , evidence that rodent visual cortex is capable of advanced visual processing , such as object recognition , is limited . Here we investigate how neurons located along the progression of extrastriate areas that , in the rat brain , run latera... | Everyday , we see thousands of different objects with many different shapes , colors , sizes and textures . Even an individual object – for example , a face – can present us with a virtually infinite number of different images , depending on from where we view it . In spite of this extraordinary variability , our brain... | [
"Abstract",
"Introduction",
"Results",
"Discussion",
"Materials",
"and",
"methods"
] | [
"neuroscience"
] | 2017 | Emergence of transformation-tolerant representations of visual objects in rat lateral extrastriate cortex |
Economic theories posit reward probability as one of the factors defining reward value . Individuals learn the value of cues that predict probabilistic rewards from experienced reward frequencies . Building on the notion that responses of dopamine neurons increase with reward probability and expected value , we asked h... | Learning to choose the most fulfilling reward from a number of options requires the ability to infer the value of each option from unpredictable and changing environments . Neurons in the brain that produce a chemical called dopamine are critical for this learning process . They broadcast a 'prediction error' signal th... | [
"Abstract",
"Introduction",
"Results",
"Discussion",
"Materials",
"and",
"methods"
] | [
"neuroscience"
] | 2016 | Dopamine neurons learn relative chosen value from probabilistic rewards |
Antifreeze proteins ( AFPs ) protect certain cold-adapted organisms from freezing to death by selectively adsorbing to internal ice crystals and inhibiting ice propagation . The molecular details of AFP adsorption-inhibition is uncertain but is proposed to involve the Gibbs–Thomson effect . Here we show by using unbias... | Water expands as it freezes . If this happens to the water inside plants and animals , the resulting ice crystals can rupture cells . To prevent this , many plants and animals that live in cold climates have evolved ‘antifreeze proteins’ . When a small particle of ice first starts to form , the antifreeze proteins bind... | [
"Abstract",
"Introduction",
"Results",
"and",
"discussion",
"Materials",
"and",
"methods"
] | [
"structural",
"biology",
"and",
"molecular",
"biophysics",
"computational",
"and",
"systems",
"biology"
] | 2015 | The biological function of an insect antifreeze protein simulated by molecular dynamics |
Perforin-2 ( MPEG1 ) is a pore-forming , antibacterial protein with broad-spectrum activity . Perforin-2 is expressed constitutively in phagocytes and inducibly in parenchymal , tissue-forming cells . In vitro , Perforin-2 prevents the intracellular replication and proliferation of bacterial pathogens in these cells . ... | An effective defense against foreign invaders is fundamental to an organism's survival . It is likely that immunity began to develop shortly after the emergence of Earth's first single-celled organisms and a remnant of that distant past still exists in our present day immune system in the form of Perforin-2 . This anci... | [
"Abstract",
"Introduction",
"Results",
"Discussion",
"Materials",
"and",
"methods"
] | [
"microbiology",
"and",
"infectious",
"disease",
"immunology",
"and",
"inflammation"
] | 2015 | Perforin-2 is essential for intracellular defense of parenchymal cells and phagocytes against pathogenic bacteria |
The functional communication of neurons in cortical networks underlies higher cognitive processes . Yet , little is known about the organization of the single neuron network or its relationship to the synchronization processes that are essential for its formation . Here , we show that the functional single neuron netwo... | The network of neurons in our brain generates all of our actions , yet it is not well understood how these neurons coordinate their activity with each other . Rhythmic electrical activity that happens at the same time across many different neurons is thought to be crucial for allowing different areas of the brain to co... | [
"Abstract",
"Introduction",
"Results",
"Discussion",
"Materials",
"and",
"methods"
] | [
"neuroscience"
] | 2016 | Uniting functional network topology and oscillations in the fronto-parietal single unit network of behaving primates |
The circadian clock interacts with other regulatory pathways to tune physiology to predictable daily changes and unexpected environmental fluctuations . However , the complexity of circadian clocks in higher organisms has prevented a clear understanding of how natural environmental conditions affect circadian clocks an... | Living things face daily , predictable challenges due to the regular day and night cycle imposed by the Earth’s rotation . Many of them have evolved an internal ‘circadian’ clock to anticipate daily changes in the environment . However , nature can also change in unpredictable ways , and in order to survive , organisms... | [
"Abstract",
"Introduction",
"Results",
"Discussion",
"Materials",
"and",
"methods"
] | [
"chromosomes",
"and",
"gene",
"expression",
"computational",
"and",
"systems",
"biology"
] | 2017 | Natural changes in light interact with circadian regulation at promoters to control gene expression in cyanobacteria |
The genetic code has been proposed to be a ‘frozen accident , ’ but the discovery of alternative genetic codes over the past four decades has shown that it can evolve to some degree . Since most examples were found anecdotally , it is difficult to draw general conclusions about the evolutionary trajectories of codon re... | All life forms rely on a ‘code’ to translate their genetic information into proteins . This code relies on limited permutations of three nucleotides – the building blocks that form DNA and other types of genetic information . Each ‘triplet’ of nucleotides – or codon – encodes a specific amino acid , the basic component... | [
"Abstract",
"Introduction",
"Results",
"Discussion",
"Materials",
"and",
"methods"
] | [
"computational",
"and",
"systems",
"biology",
"genetics",
"and",
"genomics"
] | 2021 | A computational screen for alternative genetic codes in over 250,000 genomes |
Brainstem and cerebellar neurons implement an internal model to accurately estimate self-motion during externally generated ( ‘passive’ ) movements . However , these neurons show reduced responses during self-generated ( ‘active’ ) movements , indicating that predicted sensory consequences of motor commands cancel sens... | When seated in a car , we can detect when the vehicle begins to move even with our eyes closed . Structures in the inner ear called the vestibular , or balance , organs enable us to sense our own movement . They do this by detecting head rotations , accelerations and gravity . They then pass this information on to spec... | [
"Abstract",
"Introduction",
"Results",
"Discussion",
"Materials",
"and",
"methods"
] | [
"neuroscience"
] | 2017 | A unified internal model theory to resolve the paradox of active versus passive self-motion sensation |
Alternative pre-mRNA splicing expands the complexity of the transcriptome and controls isoform-specific gene expression . Whether alternative splicing contributes to metabolic regulation is largely unknown . Here we investigated the contribution of alternative splicing to the development of diet-induced obesity . We fo... | The process of building a protein from the information encoded in a gene begins when the gene is copied to form a pre-messenger RNA molecule . This molecule is then edited to produce a final messenger RNA that is “translated” to form the protein . Different segments of the pre-messenger RNA molecule can be removed to c... | [
"Abstract",
"Introduction",
"Results",
"Discussion",
"Materials",
"and",
"methods"
] | [
"cell",
"biology"
] | 2016 | An alternative splicing program promotes adipose tissue thermogenesis |
Venom toxins are invaluable tools for exploring the structure and mechanisms of ion channels . Here , we solve the structure of double-knot toxin ( DkTx ) , a tarantula toxin that activates the heat-activated TRPV1 channel . We also provide improved structures of TRPV1 with and without the toxin bound , and investigate... | Humans and other mammals sense heat using a protein called the transient receptor potential vanilloid ( TRPV1 ) channel . This protein is found in the membranes of a particular type of nerve cell , and it forms a pore that allows certain ions to pass through the membrane . Along with sensing heat , TRPV1 can also be ac... | [
"Abstract",
"Introduction",
"Results",
"Discussion",
"Materials",
"and",
"methods"
] | [
"structural",
"biology",
"and",
"molecular",
"biophysics"
] | 2016 | Structural insights into the mechanism of activation of the TRPV1 channel by a membrane-bound tarantula toxin |
Adolescents are particularly vulnerable to nicotine , the principal addictive component driving tobacco smoking . In a companion study , we found that reduced activity of the translation initiation factor eIF2α underlies the hypersensitivity of adolescent mice to the effects of cocaine . Here we report that nicotine po... | Nicotine addiction is a serious public health problem . People who start using nicotine during adolescence are more likely to become addicted to it during adulthood , but the reasons for this are not well understood . Nicotine causes long-lasting changes in the brain that are responsible for the feelings of pleasure an... | [
"Abstract",
"Introduction",
"Results",
"and",
"discussion",
"Materials",
"and",
"methods"
] | [
"short",
"report",
"neuroscience"
] | 2016 | Translational control of nicotine-evoked synaptic potentiation in mice and neuronal responses in human smokers by eIF2α |
Photoactivation ( 'uncaging’ ) is a powerful approach for releasing bioactive small-molecules in living cells . Current uncaging methods are limited by the random distribution of caged molecules within cells . We have developed a mitochondria-specific photoactivation method , which permitted us to release free sphingos... | Fatty or oily molecules called lipids are essential components of the membranes of cells and important signaling molecules too . They are made in specific compartments of the cell , but most are found in all membranes , albeit in varying amounts . Their widespread distribution suggests that there are extensive networks... | [
"Abstract",
"Introduction",
"Results",
"Discussion",
"Materials",
"and",
"methods"
] | [
"biochemistry",
"and",
"chemical",
"biology",
"cell",
"biology",
"tools",
"and",
"resources"
] | 2018 | Mitochondria-specific photoactivation to monitor local sphingosine metabolism and function |
Serotonin is implicated in mood and affective disorders . However , growing evidence suggests that a core endogenous role is to promote flexible adaptation to changes in the causal structure of the environment , through behavioral inhibition and enhanced plasticity . We used long-term photometric recordings in mice to ... | Serotonin is a molecule that plays various roles in the human body . In the brain , it is involved in regulating mood and emotions . Growing evidence suggests that serotonin also helps animals – including humans – adapt their behavior to changes in their environment . To allow for such behavioral flexibility , serotoni... | [
"Abstract",
"Introduction",
"Results",
"Discussion",
"Materials",
"and",
"methods"
] | [
"neuroscience"
] | 2017 | Activity patterns of serotonin neurons underlying cognitive flexibility |
Entosis is a form of epithelial cell cannibalism that is prevalent in human cancer , typically triggered by loss of matrix adhesion . Here , we report an alternative mechanism for entosis in human epithelial cells , driven by mitosis . Mitotic entosis is regulated by Cdc42 , which controls mitotic morphology . Cdc42 de... | For over a century , scientists looking down microscopes at samples from human cancers have noticed cells eating other cells – in other words , cell cannibalism . The causes and mechanisms involved in this unusual process , which is also known as entosis , are not well understood and its relationship to cancer is compl... | [
"Abstract",
"Introduction",
"Results",
"Discussion",
"Material",
"and",
"methods"
] | [
"cell",
"biology",
"cancer",
"biology"
] | 2017 | Mitosis can drive cell cannibalism through entosis |
The etiological underpinnings of amyotrophic lateral sclerosis ( ALS ) are complex and incompletely understood , although contributions to pathogenesis by regulators of proteolytic pathways have become increasingly apparent . Here , we present a novel variant in UBQLN4 that is associated with ALS and show that its expr... | Amyotrophic lateral sclerosis , or ALS for short , is a disease in which parts of the brain and spinal cord progressively degenerate . Specifically , the condition causes the nerve cells that control movement – called motor neurons – to die . As a result , people with ALS lose control of their muscles . The cause of AL... | [
"Abstract",
"Introduction",
"Results",
"Discussion",
"Materials",
"and",
"methods"
] | [
"short",
"report",
"cell",
"biology",
"neuroscience"
] | 2017 | A novel ALS-associated variant in UBQLN4 regulates motor axon morphogenesis |
Spontaneous DNA breaks instigate genomic changes that fuel cancer and evolution , yet direct quantification of double-strand breaks ( DSBs ) has been limited . Predominant sources of spontaneous DSBs remain elusive . We report synthetic technology for quantifying DSBs using fluorescent-protein fusions of double-strand ... | Cells have developed a variety of mechanisms for repairing DNA molecules when breaks occur in one or both of the DNA strands . However , we know relatively little about the causes of these breaks , which often occur naturally , or even about how common they are . Learning more about the most common forms of DNA breakag... | [
"Abstract",
"Introduction",
"Results",
"Discussion",
"Materials",
"and",
"methods"
] | [
"chromosomes",
"and",
"gene",
"expression"
] | 2013 | Engineered proteins detect spontaneous DNA breakage in human and bacterial cells |
In response to Ca2+ influx , a synapse needs to release neurotransmitters quickly while immediately preparing for repeat firing . How this harmonization is achieved is not known . In this study , we found that the Ca2+ sensor synaptotagmin 1 orchestrates the membrane association/disassociation cycle of Rab3 , which fun... | Neurons communicate with one another at junctions called synapses . The arrival of an electrical signal called an action potential causes calcium ions to enter the first cell , which in turn triggers the release of molecules called neurotransmitters into the gap between the neurons . The binding of these molecules to r... | [
"Abstract",
"Introduction",
"Results",
"Discussion",
"Materials",
"and",
"methods"
] | [
"cell",
"biology",
"neuroscience"
] | 2015 | Synaptotagmin 1 directs repetitive release by coupling vesicle exocytosis to the Rab3 cycle |
Modulation of synaptic vesicle retrieval is considered to be potentially important in steady-state synaptic performance . Here we show that at physiological temperature endocytosis kinetics at hippocampal and cortical nerve terminals show a bi-phasic dependence on electrical activity . Endocytosis accelerates for the f... | Neurons communicate with each other at specialized junctions called synapses . When signals travelling along a neuron reach the presynaptic cell , this triggers small packages ( vesicles ) containing neurotransmitter molecules to release their contents into the synapse , and these molecules then cross the gap and bind ... | [
"Abstract",
"Introduction",
"Results",
"Discussion",
"Materials",
"and",
"methods"
] | [
"cell",
"biology",
"neuroscience"
] | 2013 | Dynamin phosphorylation controls optimization of endocytosis for brief action potential bursts |
Large herbivores influence ecosystem functioning via their effects on vegetation at different spatial scales . It is often overlooked that the spatial distribution of large herbivores results from their responses to interacting top-down and bottom-up ecological gradients that create landscape-scale variation in the str... | In almost every ecosystem on Earth , communities of herbivores are kept in check by both predators and the availability of the plants they eat . As herbivores move in response to these pressures , they shape local plant communities and impact vegetation across entire landscapes . Yet the role of large plant-eating mamm... | [
"Abstract",
"Introduction",
"Materials",
"and",
"methods",
"Results",
"Discussion"
] | [
"ecology"
] | 2019 | Linking spatial patterns of terrestrial herbivore community structure to trophic interactions |
Enzymes can increase the rate of biomolecular reactions by several orders of magnitude . Although the steps of substrate capture and product release are essential in the enzymatic process , complete atomic-level descriptions of these steps are difficult to obtain because of the transient nature of the intermediate conf... | Enzymes are proteins that catalyse biochemical reactions . They bind to their target molecules—known as substrates—and help to change them to make ‘products’ . Afterwards , the products are released and the enzymes are free to bind to the next molecules . To perform this activity , an enzyme can change its structure se... | [
"Abstract",
"Introduction",
"Results",
"and",
"discussion",
"Materials",
"and",
"methods"
] | [
"short",
"report",
"structural",
"biology",
"and",
"molecular",
"biophysics"
] | 2015 | Structure of a low-population intermediate state in the release of an enzyme product |
A founding paradigm in virology is that the spatial unit of the viral replication cycle is an individual cell . Multipartite viruses have a segmented genome where each segment is encapsidated separately . In this situation the viral genome is not recapitulated in a single virus particle but in the viral population . Ho... | Many viruses are small particles consisting of genetic material surrounded by a coat made of proteins . They are unable to multiply on their own and so they must enter a host cell and trick it into reading their genetic information to produce new virus particles . It is generally thought that the process of making new ... | [
"Abstract",
"Introduction",
"Results",
"Materials",
"and",
"methods"
] | [
"short",
"report",
"microbiology",
"and",
"infectious",
"disease"
] | 2019 | A multicellular way of life for a multipartite virus |
The chromatin landscape and promoter architecture are dominated by the interplay of nucleosome and transcription factor ( TF ) binding to crucial DNA sequence elements . However , it remains unclear whether nucleosomes mobilized by chromatin remodelers can influence TFs that are already present on the DNA template . In... | Cells contain thousands of genes that are encoded by molecules of DNA . In yeast and other eukaryotic organisms , this DNA is wrapped around proteins called histones to make structures called nucleosomes . This compacts the DNA and allows it to fit inside the tiny nucleus within the cell . The positioning of the nucleo... | [
"Abstract",
"Introduction",
"Results",
"Discussion",
"Materials",
"and",
"methods"
] | [
"biochemistry",
"and",
"chemical",
"biology"
] | 2015 | Dynamic regulation of transcription factors by nucleosome remodeling |
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