Phylosymbiosis: Relationships and Functional Effects of Microbial Communities across Host Evolutionary History.

Abstract:

:Phylosymbiosis was recently proposed to describe the eco-evolutionary pattern, whereby the ecological relatedness of host-associated microbial communities parallels the phylogeny of related host species. Here, we test the prevalence of phylosymbiosis and its functional significance under highly controlled conditions by characterizing the microbiota of 24 animal species from four different groups (Peromyscus deer mice, Drosophila flies, mosquitoes, and Nasonia wasps), and we reevaluate the phylosymbiotic relationships of seven species of wild hominids. We demonstrate three key findings. First, intraspecific microbiota variation is consistently less than interspecific microbiota variation, and microbiota-based models predict host species origin with high accuracy across the dataset. Interestingly, the age of host clade divergence positively associates with the degree of microbial community distinguishability between species within the host clades, spanning recent host speciation events (~1 million y ago) to more distantly related host genera (~108 million y ago). Second, topological congruence analyses of each group's complete phylogeny and microbiota dendrogram reveal significant degrees of phylosymbiosis, irrespective of host clade age or taxonomy. Third, consistent with selection on host-microbiota interactions driving phylosymbiosis, there are survival and performance reductions when interspecific microbiota transplants are conducted between closely related and divergent host species pairs. Overall, these findings indicate that the composition and functional effects of an animal's microbial community can be closely allied with host evolution, even across wide-ranging timescales and diverse animal systems reared under controlled conditions.

journal_name

PLoS Biol

journal_title

PLoS biology

authors

Brooks AW,Kohl KD,Brucker RM,van Opstal EJ,Bordenstein SR

doi

10.1371/journal.pbio.2000225

subject

Has Abstract

pub_date

2016-11-18 00:00:00

pages

e2000225

issue

11

eissn

1544-9173

issn

1545-7885

pii

pbio.2000225

journal_volume

14

pub_type

杂志文章
  • Spatial encoding in primate hippocampus during free navigation.

    abstract::The hippocampus comprises two neural signals-place cells and θ oscillations-that contribute to facets of spatial navigation. Although their complementary relationship has been well established in rodents, their respective contributions in the primate brain during free navigation remains unclear. Here, we recorded neur...

    journal_title:PLoS biology

    pub_type: 杂志文章

    doi:10.1371/journal.pbio.3000546

    authors: Courellis HS,Nummela SU,Metke M,Diehl GW,Bussell R,Cauwenberghs G,Miller CT

    更新日期:2019-12-09 00:00:00

  • Radial glial neural progenitors regulate nascent brain vascular network stabilization via inhibition of Wnt signaling.

    abstract::The cerebral cortex performs complex cognitive functions at the expense of tremendous energy consumption. Blood vessels in the brain are known to form stereotypic patterns that facilitate efficient oxygen and nutrient delivery. Yet little is known about how vessel development in the brain is normally regulated. Radial...

    journal_title:PLoS biology

    pub_type: 杂志文章

    doi:10.1371/journal.pbio.1001469

    authors: Ma S,Kwon HJ,Johng H,Zang K,Huang Z

    更新日期:2013-01-01 00:00:00

  • Exdpf is a key regulator of exocrine pancreas development controlled by retinoic acid and ptf1a in zebrafish.

    abstract::Both endocrine and exocrine pancreatic cells arise from pancreatic-duodenal homeobox 1 (pdx1)-positive progenitors. The molecular mechanisms controlling cell fate determination and subsequent proliferation, however, are poorly understood. Unlike endocrine cells, less is known about exocrine cell specification. We repo...

    journal_title:PLoS biology

    pub_type: 杂志文章

    doi:10.1371/journal.pbio.0060293

    authors: Jiang Z,Song J,Qi F,Xiao A,An X,Liu NA,Zhu Z,Zhang B,Lin S

    更新日期:2008-11-25 00:00:00

  • Authentication: A Standard Problem or a Problem of Standards?

    abstract::Reproducibility and transparency in biomedical sciences have been called into question, and scientists have been found wanting as a result. Putting aside deliberate fraud, there is evidence that a major contributor to lack of reproducibility is insufficient quality assurance of reagents used in preclinical research. C...

    journal_title:PLoS biology

    pub_type: 评论,杂志文章

    doi:10.1371/journal.pbio.1002477

    authors: Capes-Davis A,Neve RM

    更新日期:2016-06-14 00:00:00

  • GPCRs show widespread differential mRNA expression and frequent mutation and copy number variation in solid tumors.

    abstract::G protein-coupled receptors (GPCRs) are the most widely targeted gene family for Food and Drug Administration (FDA)-approved drugs. To assess possible roles for GPCRs in cancer, we analyzed The Cancer Genome Atlas (TCGA) data for mRNA expression, mutations, and copy number variation (CNV) in 20 categories and 45 subty...

    journal_title:PLoS biology

    pub_type: 杂志文章

    doi:10.1371/journal.pbio.3000434

    authors: Sriram K,Moyung K,Corriden R,Carter H,Insel PA

    更新日期:2019-11-25 00:00:00

  • Genomic insights into methanotrophy: the complete genome sequence of Methylococcus capsulatus (Bath).

    abstract::Methanotrophs are ubiquitous bacteria that can use the greenhouse gas methane as a sole carbon and energy source for growth, thus playing major roles in global carbon cycles, and in particular, substantially reducing emissions of biologically generated methane to the atmosphere. Despite their importance, and in contra...

    journal_title:PLoS biology

    pub_type: 杂志文章

    doi:10.1371/journal.pbio.0020303

    authors: Ward N,Larsen Ø,Sakwa J,Bruseth L,Khouri H,Durkin AS,Dimitrov G,Jiang L,Scanlan D,Kang KH,Lewis M,Nelson KE,Methé B,Wu M,Heidelberg JF,Paulsen IT,Fouts D,Ravel J,Tettelin H,Ren Q,Read T,DeBoy RT,Seshadri R,S

    更新日期:2004-10-01 00:00:00

  • Correction: Song playbacks demonstrate slower evolution of song discrimination in birds from Amazonia than from temperate North America.

    abstract::[This corrects the article DOI: 10.1371/journal.pbio.3000478.]. ...

    journal_title:PLoS biology

    pub_type: 已发布勘误

    doi:10.1371/journal.pbio.3000568

    authors: PLOS Biology Staff.

    更新日期:2019-11-13 00:00:00

  • Structural basis of Rap phosphatase inhibition by Phr peptides.

    abstract::Two-component systems, composed of a sensor histidine kinase and an effector response regulator (RR), are the main signal transduction devices in bacteria. In Bacillus, the Rap protein family modulates complex signaling processes mediated by two-component systems, such as competence, sporulation, or biofilm formation,...

    journal_title:PLoS biology

    pub_type: 杂志文章

    doi:10.1371/journal.pbio.1001511

    authors: Gallego del Sol F,Marina A

    更新日期:2013-01-01 00:00:00

  • The Ink4a/Arf locus operates as a regulator of the circadian clock modulating RAS activity.

    abstract::The mammalian circadian clock and the cell cycle are two major biological oscillators whose coupling influences cell fate decisions. In the present study, we use a model-driven experimental approach to investigate the interplay between clock and cell cycle components and the dysregulatory effects of RAS on this couple...

    journal_title:PLoS biology

    pub_type: 杂志文章

    doi:10.1371/journal.pbio.2002940

    authors: El-Athman R,Genov NN,Mazuch J,Zhang K,Yu Y,Fuhr L,Abreu M,Li Y,Wallach T,Kramer A,Schmitt CA,Relógio A

    更新日期:2017-12-07 00:00:00

  • Identification of FAM173B as a protein methyltransferase promoting chronic pain.

    abstract::Chronic pain is a debilitating problem, and insights in the neurobiology of chronic pain are needed for the development of novel pain therapies. A genome-wide association study implicated the 5p15.2 region in chronic widespread pain. This region includes the coding region for FAM173B, a functionally uncharacterized pr...

    journal_title:PLoS biology

    pub_type: 杂志文章

    doi:10.1371/journal.pbio.2003452

    authors: Willemen HLDM,Kavelaars A,Prado J,Maas M,Versteeg S,Nellissen LJJ,Tromp J,Gonzalez Cano R,Zhou W,Jakobsson ME,Małecki J,Posthuma G,Habib AM,Heijnen CJ,Falnes PØ,Eijkelkamp N

    更新日期:2018-02-14 00:00:00

  • The DEAH-box helicase Dhr1 dissociates U3 from the pre-rRNA to promote formation of the central pseudoknot.

    abstract::In eukaryotes, the highly conserved U3 small nucleolar RNA (snoRNA) base-pairs to multiple sites in the pre-ribosomal RNA (pre-rRNA) to promote early cleavage and folding events. Binding of the U3 box A region to the pre-rRNA is mutually exclusive with folding of the central pseudoknot (CPK), a universally conserved r...

    journal_title:PLoS biology

    pub_type: 杂志文章

    doi:10.1371/journal.pbio.1002083

    authors: Sardana R,Liu X,Granneman S,Zhu J,Gill M,Papoulas O,Marcotte EM,Tollervey D,Correll CC,Johnson AW

    更新日期:2015-02-24 00:00:00

  • Moving developmental social neuroscience toward a second-person approach.

    abstract::Infants' cognitive development and learning rely profoundly on their interactions with other people. In the first year, infants become increasingly sensitive to others' gaze and use it to focus their own attention on relevant visual input. However, infants are not passive observers in early social interactions, and th...

    journal_title:PLoS biology

    pub_type: 评论,杂志文章

    doi:10.1371/journal.pbio.3000055

    authors: Hoehl S,Markova G

    更新日期:2018-12-13 00:00:00

  • The Drosophila sterile-20 kinase slik controls cell proliferation and apoptosis during imaginal disc development.

    abstract::Cell proliferation and programmed cell death are closely controlled during animal development. Proliferative stimuli generally also induce apoptosis, and anti-apoptotic factors are required to allow net cell proliferation. Genetic studies in Drosophila have led to identification of a number of genes that control both ...

    journal_title:PLoS biology

    pub_type: 杂志文章

    doi:10.1371/journal.pbio.0000035

    authors: Hipfner DR,Cohen SM

    更新日期:2003-11-01 00:00:00

  • Peli1 impairs microglial Aβ phagocytosis through promoting C/EBPβ degradation.

    abstract::Amyloid-β (Aβ) accumulation in the brain is a hallmark of Alzheimer's disease (AD) pathology. However, the molecular mechanism controlling microglial Aβ phagocytosis is poorly understood. Here we found that the E3 ubiquitin ligase Pellino 1 (Peli1) is induced in the microglia of AD-like five familial AD (5×FAD) mice, ...

    journal_title:PLoS biology

    pub_type: 杂志文章

    doi:10.1371/journal.pbio.3000837

    authors: Xu J,Yu T,Pietronigro EC,Yuan J,Arioli J,Pei Y,Luo X,Ye J,Constantin G,Mao C,Xiao Y

    更新日期:2020-10-05 00:00:00

  • A novel unsupervised analysis of electrophysiological signals reveals new sleep substages in mice.

    abstract::Sleep science is entering a new era, thanks to new data-driven analysis approaches that, combined with mouse gene-editing technologies, show a promise in functional genomics and translational research. However, the investigation of sleep is time consuming and not suitable for large-scale phenotypic datasets, mainly du...

    journal_title:PLoS biology

    pub_type: 杂志文章

    doi:10.1371/journal.pbio.2003663

    authors: Katsageorgiou VM,Sona D,Zanotto M,Lassi G,Garcia-Garcia C,Tucci V,Murino V

    更新日期:2018-05-29 00:00:00

  • Why is congenital Zika syndrome asymmetrically distributed among human populations?

    abstract::Zika virus (ZIKV) is a health burden due to the severe neurological abnormalities that arise after congenital infection. Although multiple experimental studies have linked ZIKV with neural birth defects, the scientific community has not been able to fully explain why Congenital Zika Syndrome (CZS) was only apparent af...

    journal_title:PLoS biology

    pub_type: 杂志文章,评审

    doi:10.1371/journal.pbio.2006592

    authors: Barbeito-Andrés J,Schuler-Faccini L,Garcez PP

    更新日期:2018-08-24 00:00:00

  • Timing and sequence of brain activity in top-down control of visual-spatial attention.

    abstract::Recent brain imaging studies using functional magnetic resonance imaging (fMRI) have implicated a frontal-parietal network in the top-down control of attention. However, little is known about the timing and sequence of activations within this network. To investigate these timing questions, we used event-related electr...

    journal_title:PLoS biology

    pub_type: 杂志文章

    doi:10.1371/journal.pbio.0050012

    authors: Grent-'t-Jong T,Woldorff MG

    更新日期:2007-01-01 00:00:00

  • Laws of concatenated perception: Vision goes for novelty, decisions for perseverance.

    abstract::Every instant of perception depends on a cascade of brain processes calibrated to the history of sensory and decisional events. In the present work, we show that human visual perception is constantly shaped by two contrasting forces exerted by sensory adaptation and past decisions. In a series of experiments, we used ...

    journal_title:PLoS biology

    pub_type: 杂志文章

    doi:10.1371/journal.pbio.3000144

    authors: Pascucci D,Mancuso G,Santandrea E,Della Libera C,Plomp G,Chelazzi L

    更新日期:2019-03-05 00:00:00

  • The virtual cell animation collection: tools for teaching molecular and cellular biology.

    abstract::A cell is a minifactory in which structures and molecules are assembled, rearranged, disassembled, packaged, sorted, and transported. Because cellular structures and molecules are invisible to the human eye, students often have difficulty conceptualizing the dynamic nature of cells that function at multiple scales acr...

    journal_title:PLoS biology

    pub_type: 杂志文章

    doi:10.1371/journal.pbio.1002118

    authors: Reindl KM,White AR,Johnson C,Vender B,Slator BM,McClean P

    更新日期:2015-04-09 00:00:00

  • Hypoxia-inducible factor directs POMC gene to mediate hypothalamic glucose sensing and energy balance regulation.

    abstract::Hypoxia-inducible factor (HIF) is a nuclear transcription factor that responds to environmental and pathological hypoxia to induce metabolic adaptation, vascular growth, and cell survival. Here we found that HIF subunits and HIF2α in particular were normally expressed in the mediobasal hypothalamus of mice. Hypothalam...

    journal_title:PLoS biology

    pub_type: 杂志文章

    doi:10.1371/journal.pbio.1001112

    authors: Zhang H,Zhang G,Gonzalez FJ,Park SM,Cai D

    更新日期:2011-07-01 00:00:00

  • Correction: Publication reform to safeguard wildlife from researcher harm.

    abstract::[This corrects the article DOI: 10.1371/journal.pbio.3000193.]. ...

    journal_title:PLoS biology

    pub_type: 杂志文章,已发布勘误

    doi:10.1371/journal.pbio.3000752

    authors: Field KA,Paquet PC,Artelle K,Proulx G,Brook RK,Darimont CT

    更新日期:2020-05-18 00:00:00

  • New perspectives on the origins of the unique vocal tract of birds.

    abstract::Birds utilize a unique structure, called a syrinx, for the production of their vocalizations. The origins of the syrinx are not well understood. New work, utilizing first principles-based models, suggests that a key element in selection for the early syrinx might be the position of this vocal structure: although the l...

    journal_title:PLoS biology

    pub_type: 评论,杂志文章

    doi:10.1371/journal.pbio.3000184

    authors: Habib MB

    更新日期:2019-03-28 00:00:00

  • Language evolution and complexity considerations: The no half-Merge fallacy.

    abstract::Recently, prominent theoretical linguists have argued for an explicit scenario for the evolution of the human language capacity on the basis of its computational properties. Concretely, the simplicity of a minimalist formulation of the operation Merge, which allows humans to recursively compute hierarchical relations ...

    journal_title:PLoS biology

    pub_type: 杂志文章

    doi:10.1371/journal.pbio.3000389

    authors: Martins PT,Boeckx C

    更新日期:2019-11-27 00:00:00

  • Correction: Selection and characterization of ultrahigh potency designed ankyrin repeat protein inhibitors of C. difficile toxin B.

    abstract::[This corrects the article DOI: 10.1371/journal.pbio.3000311.]. ...

    journal_title:PLoS biology

    pub_type: 已发布勘误

    doi:10.1371/journal.pbio.3000514

    authors: Simeon R,Jiang M,Chamoun-Emanuelli AM,Yu H,Zhang Y,Meng R,Peng Z,Jakana J,Zhang J,Feng H,Chen Z

    更新日期:2019-10-04 00:00:00

  • Perceptual integration rapidly activates dorsal visual pathway to guide local processing in early visual areas.

    abstract::Rapidly grouping local elements into an organized object (i.e., perceptual integration) is a fundamental yet challenging task, especially in noisy contexts. Previous studies demonstrate that ventral visual pathway, which is widely known to mediate object recognition, engages in the process by conveying object-level in...

    journal_title:PLoS biology

    pub_type: 杂志文章

    doi:10.1371/journal.pbio.2003646

    authors: Liu L,Wang F,Zhou K,Ding N,Luo H

    更新日期:2017-11-30 00:00:00

  • The bacterial fimbrial tip acts as a mechanical force sensor.

    abstract::There is increasing evidence that the catch bond mechanism, where binding becomes stronger under tensile force, is a common property among non-covalent interactions between biological molecules that are exposed to mechanical force in vivo. Here, by using the multi-protein tip complex of the mannose-binding type 1 fimb...

    journal_title:PLoS biology

    pub_type: 杂志文章

    doi:10.1371/journal.pbio.1000617

    authors: Aprikian P,Interlandi G,Kidd BA,Le Trong I,Tchesnokova V,Yakovenko O,Whitfield MJ,Bullitt E,Stenkamp RE,Thomas WE,Sokurenko EV

    更新日期:2011-05-01 00:00:00

  • Assessing tumor progression factors by somatic gene transfer into a mouse model: Bcl-xL promotes islet tumor cell invasion.

    abstract::Tumors develop through multiple stages, implicating multiple effectors, but the tools to assess how candidate genes contribute to stepwise tumor progression have been limited. We have developed a novel system in which progression of phenotypes in a mouse model of pancreatic islet cell tumorigenesis can be used to meas...

    journal_title:PLoS biology

    pub_type: 杂志文章

    doi:10.1371/journal.pbio.0050276

    authors: Du YC,Lewis BC,Hanahan D,Varmus H

    更新日期:2007-10-16 00:00:00

  • Distinct mammalian precursors are committed to generate neurons with defined dendritic projection patterns.

    abstract::The mechanisms that regulate how dendrites target different neurons to establish connections with specific cell types remain largely unknown. In particular, the formation of cell-type-specific connectivity during postnatal neurogenesis could be either determined by the local environment of the mature neuronal circuit ...

    journal_title:PLoS biology

    pub_type: 杂志文章

    doi:10.1371/journal.pbio.0050300

    authors: Kelsch W,Mosley CP,Lin CW,Lois C

    更新日期:2007-11-01 00:00:00

  • A systematic approach to pair secretory cargo receptors with their cargo suggests a mechanism for cargo selection by Erv14.

    abstract::The endoplasmic reticulum (ER) is the site of synthesis of secreted and membrane proteins. To exit the ER, proteins are packaged into COPII vesicles through direct interaction with the COPII coat or aided by specific cargo receptors. Despite the fundamental role of such cargo receptors in protein traffic, only a few h...

    journal_title:PLoS biology

    pub_type: 杂志文章

    doi:10.1371/journal.pbio.1001329

    authors: Herzig Y,Sharpe HJ,Elbaz Y,Munro S,Schuldiner M

    更新日期:2012-01-01 00:00:00

  • Rapid evolution of sex pheromone-producing enzyme expression in Drosophila.

    abstract::A wide range of organisms use sex pheromones to communicate with each other and to identify appropriate mating partners. While the evolution of chemical communication has been suggested to cause sexual isolation and speciation, the mechanisms that govern evolutionary transitions in sex pheromone production are poorly ...

    journal_title:PLoS biology

    pub_type: 杂志文章

    doi:10.1371/journal.pbio.1000168

    authors: Shirangi TR,Dufour HD,Williams TM,Carroll SB

    更新日期:2009-08-01 00:00:00