当前位置： SCI文献检索 > Microbiome期刊下所有文献 > Re-evaluating the relationship between missing heritability and the microbiome.

Re-evaluating the relationship between missing heritability and the microbiome.

Abstract：

:Human genome-wide association studies (GWASs) have recurrently estimated lower heritability estimates than familial studies. Many explanations have been suggested to explain these lower estimates, including that a substantial proportion of genetic variation and gene-by-environment interactions are unmeasured in typical GWASs. The human microbiome is potentially related to both of these explanations, but it has been more commonly considered as a source of unmeasured genetic variation. In particular, it has recently been argued that the genetic variation within the human microbiome should be included when estimating trait heritability. We outline issues with this argument, which in its strictest form depends on the holobiont model of human-microbiome interactions. Instead, we argue that the microbiome could be leveraged to help control for environmental variation across a population, although that remains to be determined. We discuss potential approaches that could be explored to determine whether integrating microbiome sequencing data into GWASs is useful. Video abstract.

journal_name

Microbiome

journal_title

Microbiome

authors

Douglas GM,Bielawski JP,Langille MGI

doi

10.1186/s40168-020-00839-4

subject

Has Abstract

pub_date

2020-06-08 00:00:00

pages

87

issue

1

issn

2049-2618

pii

10.1186/s40168-020-00839-4

journal_volume

8

pub_type

信件

相关文献

Microbiome文献大全
  • Correction to: Stochastic processes shape microeukaryotic community assembly in a subtropical river across wet and dry seasons.

    abstract：:Following publication of the original article [1], the authors reported an error in Figure 1 and a text on page 13. In Figure 1, some areas are missing and the correct figure is presented here. On page 13, the sentence should be updated to the following (change has been indicated in bold italics). ...

    journal_title：Microbiome

    pub_type： 已发布勘误

    doi：10.1186/s40168-019-0763-x

    authors： Chen W,Ren K,Isabwe A,Chen H,Liu M,Yang J

    更新日期：2019-11-14 00:00:00

  • The human gallbladder microbiome is related to the physiological state and the biliary metabolic profile.

    abstract：BACKGROUND:The microbial populations of the human intestinal tract and their relationship to specific diseases have been extensively studied during the last decade. However, the characterization of the human bile microbiota as a whole has been hampered by difficulties in accessing biological samples and the lack of ade...

    journal_title：Microbiome

    pub_type： 杂志文章

    doi：10.1186/s40168-019-0712-8

    authors： Molinero N,Ruiz L,Milani C,Gutiérrez-Díaz I,Sánchez B,Mangifesta M,Segura J,Cambero I,Campelo AB,García-Bernardo CM,Cabrera A,Rodríguez JI,González S,Rodríguez JM,Ventura M,Delgado S,Margolles A

    更新日期：2019-07-04 00:00:00

  • Feasibility of using alternative swabs and storage solutions for paired SARS-CoV-2 detection and microbiome analysis in the hospital environment.

    abstract：BACKGROUND:Determining the role of fomites in the transmission of SARS-CoV-2 is essential in the hospital setting and will likely be important outside of medical facilities as governments around the world make plans to ease COVID-19 public health restrictions and attempt to safely reopen economies. Expanding COVID-19 t...

    journal_title：Microbiome

    pub_type： 杂志文章

    doi：10.1186/s40168-020-00960-4

    authors： Minich JJ,Ali F,Marotz C,Belda-Ferre P,Chiang L,Shaffer JP,Carpenter CS,McDonald D,Gilbert J,Allard SM,Allen EE,Knight R,Sweeney DA,Swafford AD

    更新日期：2021-01-22 00:00:00

  • Facultative methanotrophs are abundant at terrestrial natural gas seeps.

    abstract：BACKGROUND:Natural gas contains methane and the gaseous alkanes ethane, propane and butane, which collectively influence atmospheric chemistry and cause global warming. Methane-oxidising bacteria, methanotrophs, are crucial in mitigating emissions of methane as they oxidise most of the methane produced in soils and the...

    journal_title：Microbiome

    pub_type： 杂志文章

    doi：10.1186/s40168-018-0500-x

    authors： Farhan Ul Haque M,Crombie AT,Ensminger SA,Baciu C,Murrell JC

    更新日期：2018-06-28 00:00:00

  • CloVR-ITS: Automated internal transcribed spacer amplicon sequence analysis pipeline for the characterization of fungal microbiota.

    abstract：BACKGROUND:Besides the development of comprehensive tools for high-throughput 16S ribosomal RNA amplicon sequence analysis, there exists a growing need for protocols emphasizing alternative phylogenetic markers such as those representing eukaryotic organisms. RESULTS:Here we introduce CloVR-ITS, an automated pipeline ...

    journal_title：Microbiome

    pub_type： 杂志文章

    doi：10.1186/2049-2618-1-6

    authors： White JR,Maddox C,White O,Angiuoli SV,Fricke WF

    更新日期：2013-02-04 00:00:00

  • Niche differentiation rather than biogeography shapes the diversity and composition of microbiome of Cycas panzhihuaensis.

    abstract：BACKGROUND:Given their adaptation to nutrient-poor and drought environments, cycads are vital models for plant-microbiome interaction research because they are likely to host an important reservoir of beneficial microbes that may support cycad survival. However, a comprehensive understanding of the diversity and commun...

    journal_title：Microbiome

    pub_type： 杂志文章

    doi：10.1186/s40168-019-0770-y

    authors： Zheng Y,Gong X

    更新日期：2019-12-02 00:00:00

  • Rhizosphere microbiomes diverge among Populus trichocarpa plant-host genotypes and chemotypes, but it depends on soil origin.

    abstract：BACKGROUND:Plants have developed defense strategies for phytopathogen and herbivore protection via coordinated metabolic mechanisms. Low-molecular weight metabolites produced within plant tissues, such as salicylic acid, represent one such mechanism which likely mediates plant - microbe interactions above and below gro...

    journal_title：Microbiome

    pub_type： 杂志文章

    doi：10.1186/s40168-019-0668-8

    authors： Veach AM,Morris R,Yip DZ,Yang ZK,Engle NL,Cregger MA,Tschaplinski TJ,Schadt CW

    更新日期：2019-05-18 00:00:00

  • The vaginal microbiota, human papillomavirus infection and cervical intraepithelial neoplasia: what do we know and where are we going next?

    abstract：:The vaginal microbiota plays a significant role in health and disease of the female reproductive tract. Next-generation sequencing techniques based upon the analysis of bacterial 16S rRNA genes permit in-depth study of vaginal microbial community structure to a level of detail not possible with standard culture-based ...

    journal_title：Microbiome

    pub_type： 杂志文章,评审

    doi：10.1186/s40168-016-0203-0

    authors： Mitra A,MacIntyre DA,Marchesi JR,Lee YS,Bennett PR,Kyrgiou M

    更新日期：2016-11-01 00:00:00

  • Antimicrobial-specific response from resistance gene carriers studied in a natural, highly diverse microbiome.

    abstract：BACKGROUND:Antimicrobial resistance (AMR) is a major threat to public health. Microorganisms equipped with AMR genes are suggested to have partially emerged from natural habitats; however, this hypothesis remains inconclusive so far. To understand the consequences of the introduction of exogenic antimicrobials into nat...

    journal_title：Microbiome

    pub_type： 杂志文章

    doi：10.1186/s40168-020-00982-y

    authors： Wicaksono WA,Kusstatscher P,Erschen S,Reisenhofer-Graber T,Grube M,Cernava T,Berg G

    更新日期：2021-01-27 00:00:00

  • Genomic insights into potential interdependencies in microbial hydrocarbon and nutrient cycling in hydrothermal sediments.

    abstract：BACKGROUND:Deep-sea hydrothermal vents are hotspots for productivity and biodiversity. Thermal pyrolysis and circulation produce fluids rich in hydrocarbons and reduced compounds that stimulate microbial activity in surrounding sediments. Several studies have characterized the diversity of Guaymas Basin (Gulf of Califo...

    journal_title：Microbiome

    pub_type： 杂志文章

    doi：10.1186/s40168-017-0322-2

    authors： Dombrowski N,Seitz KW,Teske AP,Baker BJ

    更新日期：2017-08-23 00:00:00

  • Changes of the human skin microbiota upon chronic exposure to polycyclic aromatic hydrocarbon pollutants.

    abstract：BACKGROUND:Polycyclic aromatic hydrocarbons (PAHs) are of environmental and public health concerns and contribute to adverse skin attributes such as premature skin aging and pigmentary disorder. However, little information is available on the potential roles of chronic urban PAH pollutant exposure on the cutaneous micr...

    journal_title：Microbiome

    pub_type： 杂志文章

    doi：10.1186/s40168-020-00874-1

    authors： Leung MHY,Tong X,Bastien P,Guinot F,Tenenhaus A,Appenzeller BMR,Betts RJ,Mezzache S,Li J,Bourokba N,Breton L,Clavaud C,Lee PKH

    更新日期：2020-06-26 00:00:00

  • Interactive effects of temperature, organic carbon, and pipe material on microbiota composition and Legionella pneumophila in hot water plumbing systems.

    abstract：BACKGROUND:Several biotic and abiotic factors have been reported to influence the proliferation of microbes, including Legionella pneumophila, in hot water premise plumbing systems, but their combined effects have not been systematically evaluated. Here, we utilize simulated household water heaters to examine the effec...

    journal_title：Microbiome

    pub_type： 杂志文章

    doi：10.1186/s40168-017-0348-5

    authors： Proctor CR,Dai D,Edwards MA,Pruden A

    更新日期：2017-10-04 00:00:00

  • The occurrence of potato common scab correlates with the community composition and function of the geocaulosphere soil microbiome.

    abstract：BACKGROUND:Soil microorganisms can mediate the occurrence of plant diseases. Potato common scab (CS) is a refractory disease caused by pathogenic Streptomyces that occurs worldwide, but little is known about the interactions between CS and the soil microbiome. In this study, four soil-root system compartments (geocaulo...

    journal_title：Microbiome

    pub_type： 杂志文章

    doi：10.1186/s40168-019-0629-2

    authors： Shi W,Li M,Wei G,Tian R,Li C,Wang B,Lin R,Shi C,Chi X,Zhou B,Gao Z

    更新日期：2019-02-01 00:00:00

  • The unsolved problem of otitis media in indigenous populations: a systematic review of upper respiratory and middle ear microbiology in indigenous children with otitis media.

    abstract：BACKGROUND:Otitis media (OM) imposes a great burden of disease in indigenous populations around the world, despite a variety of treatment and prevention programs. Improved understanding of the pathogenesis of OM in indigenous populations is required to advance treatment and reduce prevalence. We conducted a systematic ...

    journal_title：Microbiome

    pub_type： 杂志文章

    doi：10.1186/s40168-018-0577-2

    authors： Coleman A,Wood A,Bialasiewicz S,Ware RS,Marsh RL,Cervin A

    更新日期：2018-11-05 00:00:00

  • Microbial differences between dental plaque and historic dental calculus are related to oral biofilm maturation stage.

    abstract：BACKGROUND:Dental calculus, calcified oral plaque biofilm, contains microbial and host biomolecules that can be used to study historic microbiome communities and host responses. Dental calculus does not typically accumulate as much today as historically, and clinical oral microbiome research studies focus primarily on ...

    journal_title：Microbiome

    pub_type： 历史文章,杂志文章

    doi：10.1186/s40168-019-0717-3

    authors： Velsko IM,Fellows Yates JA,Aron F,Hagan RW,Frantz LAF,Loe L,Martinez JBR,Chaves E,Gosden C,Larson G,Warinner C

    更新日期：2019-07-06 00:00:00

  • Rumen metagenome and metatranscriptome analyses of low methane yield sheep reveals a Sharpea-enriched microbiome characterised by lactic acid formation and utilisation.

    abstract：BACKGROUND:Enteric fermentation by farmed ruminant animals is a major source of methane and constitutes the second largest anthropogenic contributor to global warming. Reducing methane emissions from ruminants is needed to ensure sustainable animal production in the future. Methane yield varies naturally in sheep and i...

    journal_title：Microbiome

    pub_type： 杂志文章

    doi：10.1186/s40168-016-0201-2

    authors： Kamke J,Kittelmann S,Soni P,Li Y,Tavendale M,Ganesh S,Janssen PH,Shi W,Froula J,Rubin EM,Attwood GT

    更新日期：2016-10-19 00:00:00

  • Direct and indirect effects of a pH gradient bring insights into the mechanisms driving prokaryotic community structures.

    abstract：BACKGROUND:pH is frequently reported as the main driver for prokaryotic community structure in soils. However, pH changes are also linked to "spillover effects" on other chemical parameters (e.g., availability of Al, Fe, Mn, Zn, and Cu) and plant growth, but these indirect effects on the microbial communities are rarel...

    journal_title：Microbiome

    pub_type： 杂志文章

    doi：10.1186/s40168-018-0482-8

    authors： Lammel DR,Barth G,Ovaskainen O,Cruz LM,Zanatta JA,Ryo M,de Souza EM,Pedrosa FO

    更新日期：2018-06-11 00:00:00

  • Short-term consumption of a high-fat diet increases host susceptibility to Listeria monocytogenes infection.

    abstract：BACKGROUND:A westernized diet comprising a high caloric intake from animal fats is known to influence the development of pathological inflammatory conditions. However, there has been relatively little focus upon the implications of such diets for the progression of infectious disease. Here, we investigated the influenc...

    journal_title：Microbiome

    pub_type： 杂志文章

    doi：10.1186/s40168-019-0621-x

    authors： Las Heras V,Clooney AG,Ryan FJ,Cabrera-Rubio R,Casey PG,Hueston CM,Pinheiro J,Rudkin JK,Melgar S,Cotter PD,Hill C,Gahan CGM

    更新日期：2019-01-18 00:00:00

  • The chicken gut metagenome and the modulatory effects of plant-derived benzylisoquinoline alkaloids.

    abstract：BACKGROUND:Sub-therapeutic antibiotics are widely used as growth promoters in the poultry industry; however, the resulting antibiotic resistance threatens public health. A plant-derived growth promoter, Macleaya cordata extract (MCE), with effective ingredients of benzylisoquinoline alkaloids, is a potential alternativ...

    journal_title：Microbiome

    pub_type： 杂志文章

    doi：10.1186/s40168-018-0590-5

    authors： Huang P,Zhang Y,Xiao K,Jiang F,Wang H,Tang D,Liu D,Liu B,Liu Y,He X,Liu H,Liu X,Qing Z,Liu C,Huang J,Ren Y,Yun L,Yin L,Lin Q,Zeng C,Su X,Yuan J,Lin L,Hu N,Cao H,Huang S,Guo Y,Fan W,Zeng J

    更新日期：2018-11-27 00:00:00

  • Identification of 76 novel B1 metallo-β-lactamases through large-scale screening of genomic and metagenomic data.

    abstract：BACKGROUND:Metallo-β-lactamases are bacterial enzymes that provide resistance to carbapenems, the most potent class of antibiotics. These enzymes are commonly encoded on mobile genetic elements, which, together with their broad substrate spectrum and lack of clinically useful inhibitors, make them a particularly proble...

    journal_title：Microbiome

    pub_type： 杂志文章

    doi：10.1186/s40168-017-0353-8

    authors： Berglund F,Marathe NP,Österlund T,Bengtsson-Palme J,Kotsakis S,Flach CF,Larsson DGJ,Kristiansson E

    更新日期：2017-10-12 00:00:00

  • VALENCIA: a nearest centroid classification method for vaginal microbial communities based on composition.

    abstract：BACKGROUND:Taxonomic profiles of vaginal microbial communities can be sorted into a discrete number of categories termed community state types (CSTs). This approach is advantageous because collapsing a hyper-dimensional taxonomic profile into a single categorical variable enables efforts such as data exploration, epide...

    journal_title：Microbiome

    pub_type： 杂志文章

    doi：10.1186/s40168-020-00934-6

    authors： France MT,Ma B,Gajer P,Brown S,Humphrys MS,Holm JB,Waetjen LE,Brotman RM,Ravel J

    更新日期：2020-11-23 00:00:00

  • (Dis)Trust your gut: the gut microbiome in age-related inflammation, health, and disease.

    abstract：:Chronic inflammation represents one of the most consistent biologic features of aging. However, the precise etiology of persistent low-grade increases in inflammation remains unclear. Recent evidence suggests that the gut microbiome may play a key role in age-related inflammation. Indeed, several studies have indicate...

    journal_title：Microbiome

    pub_type： 杂志文章,评审

    doi：10.1186/s40168-017-0296-0

    authors： Buford TW

    更新日期：2017-07-14 00:00:00

  • An integrated meta-omics approach reveals substrates involved in synergistic interactions in a bisphenol A (BPA)-degrading microbial community.

    abstract：BACKGROUND:Understanding microbial interactions in engineering bioprocesses is important to enhance and optimize performance outcomes and requires dissection of the multi-layer complexities of microbial communities. However, unraveling microbial interactions as well as substrates involved in complex microbial communiti...

    journal_title：Microbiome

    pub_type： 杂志文章

    doi：10.1186/s40168-019-0634-5

    authors： Yu K,Yi S,Li B,Guo F,Peng X,Wang Z,Wu Y,Alvarez-Cohen L,Zhang T

    更新日期：2019-02-06 00:00:00

  • Diet shapes the gut microbiome of pigs during nursing and weaning.

    abstract：BACKGROUND:The newborn mammal is rapidly colonized by a complex microbial community, whose importance for host health is becoming increasingly clear. Understanding the forces that shape the early community, especially during the nursing period, is critical to gain insight into how this consortium of microbes is assembl...

    journal_title：Microbiome

    pub_type： 杂志文章

    doi：10.1186/s40168-015-0091-8

    authors： Frese SA,Parker K,Calvert CC,Mills DA

    更新日期：2015-07-01 00:00:00

  • A two-stage microbial association mapping framework with advanced FDR control.

    abstract：BACKGROUND:In microbiome studies, it is important to detect taxa which are associated with pathological outcomes at the lowest definable taxonomic rank, such as genus or species. Traditionally, taxa at the target rank are tested for individual association, followed by the Benjamini-Hochberg (BH) procedure to control fo...

    journal_title：Microbiome

    pub_type： 杂志文章

    doi：10.1186/s40168-018-0517-1

    authors： Hu J,Koh H,He L,Liu M,Blaser MJ,Li H

    更新日期：2018-07-25 00:00:00

  • Hybridization capture reveals microbial diversity missed using current profiling methods.

    abstract：BACKGROUND:Microorganisms comprise the majority of living organisms on our planet. For many years, exploration of the composition of microbial communities has been performed through the PCR-based study of the small subunit rRNA gene due to its high conservation across the domains of life. The application of this method...

    journal_title：Microbiome

    pub_type： 杂志文章

    doi：10.1186/s40168-018-0442-3

    authors： Gasc C,Peyret P

    更新日期：2018-03-27 00:00:00

  • Quantifying the contribution of microbial immigration in engineered water systems.

    abstract：:Immigration is a process that can influence the assembly of microbial communities in natural and engineered environments. However, it remains challenging to quantitatively evaluate the contribution of this process to the microbial diversity and function in the receiving ecosystems. Currently used methods, i.e., counti...

    journal_title：Microbiome

    pub_type： 杂志文章,评审

    doi：10.1186/s40168-019-0760-0

    authors： Mei R,Liu WT

    更新日期：2019-11-06 00:00:00

  • Gut-dependent microbial translocation induces inflammation and cardiovascular events after ST-elevation myocardial infarction.

    abstract：BACKGROUND:Post-infarction cardiovascular remodeling and heart failure are the leading cause of myocardial infarction (MI)-driven death during the past decades. Experimental observations have involved intestinal microbiota in the susceptibility to MI in mice; however, in humans, identifying whether translocation of gut...

    journal_title：Microbiome

    pub_type： 杂志文章

    doi：10.1186/s40168-018-0441-4

    authors： Zhou X,Li J,Guo J,Geng B,Ji W,Zhao Q,Li J,Liu X,Liu J,Guo Z,Cai W,Ma Y,Ren D,Miao J,Chen S,Zhang Z,Chen J,Zhong J,Liu W,Zou M,Li Y,Cai J

    更新日期：2018-04-03 00:00:00

  • Context and the human microbiome.

    abstract：:Human microbiome reference datasets provide epidemiological context for researchers, enabling them to uncover new insights into their own data through meta-analyses. In addition, large and comprehensive reference sets offer a means to develop or test hypotheses and can pave the way for addressing practical study desig...

    journal_title：Microbiome

    pub_type： 杂志文章,评审

    doi：10.1186/s40168-015-0117-2

    authors： McDonald D,Birmingham A,Knight R

    更新日期：2015-11-04 00:00:00

  • A comparison of methods used to unveil the genetic and metabolic pool in the built environment.

    abstract：BACKGROUND:A majority of indoor residential microbes originate from humans, pets, and outdoor air and are not adapted to the built environment (BE). Consequently, a large portion of the microbes identified by DNA-based methods are either dead or metabolically inactive. Although many exceptions have been noted, the ribo...

    journal_title：Microbiome

    pub_type： 杂志文章

    doi：10.1186/s40168-018-0453-0

    authors： Gomez-Silvan C,Leung MHY,Grue KA,Kaur R,Tong X,Lee PKH,Andersen GL

    更新日期：2018-04-16 00:00:00