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Overall survival in the OlympiA phase III trial of adjuvant olaparib in patients with germline pathogenic variants in BRCA1/2 and high-risk, early breast cancer

Geyer, C.E. ; Garber, J.E. ; Gelber, R.D. ; [et al.]

Elsevier BV ; 2022

In: Annals of Oncology Vol. 33, No. 12 ( 2022-12), p. 1250-1268

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In: Annals of Oncology, Elsevier BV, Vol. 33, No. 12 ( 2022-12), p. 1250-1268

Type of Medium: Online Resource

ISSN: 0923-7534

URL: Article

DOI: 10.1016/j.annonc.2022.09.159

Language: English

Publisher: Elsevier BV

Publication Date: 2022

detail.hit.zdb_id: 2003498-2

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A global metagenomic map of urban microbiomes and antimicrobial resistance

Danko, David ; Bezdan, Daniela ; Afshin, Evan E. ; [et al.]

Elsevier BV ; 2021

In: Cell Vol. 184, No. 13 ( 2021-06), p. 3376-3393.e17

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In: Cell, Elsevier BV, Vol. 184, No. 13 ( 2021-06), p. 3376-3393.e17

Type of Medium: Online Resource

ISSN: 0092-8674

URL: Article

DOI: 10.1016/j.cell.2021.05.002

RVK:

XA 36269

RVK:

WA 15000

Language: English

Publisher: Elsevier BV

Publication Date: 2021

detail.hit.zdb_id: 187009-9

detail.hit.zdb_id: 2001951-8

SSG: 12

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The Complete Genome of Teredinibacter turnerae T7901: An Intracellular Endosymbiont of Marine Wood-Boring Bivalves (Shipworms)

Yang, Joyce C. ; Madupu, Ramana ; Durkin, A. Scott ; [et al.]

Public Library of Science (PLoS) ; 2009

In: PLoS ONE Vol. 4, No. 7 ( 2009-7-1), p. e6085-

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In: PLoS ONE, Public Library of Science (PLoS), Vol. 4, No. 7 ( 2009-7-1), p. e6085-

Type of Medium: Online Resource

ISSN: 1932-6203

URL: Article

DOI: 10.1371/journal.pone.0006085

DOI: 10.1371/journal.pone.0006085.s001

DOI: 10.1371/journal.pone.0006085.s002

DOI: 10.1371/journal.pone.0006085.s003

DOI: 10.1371/journal.pone.0006085.s004

DOI: 10.1371/journal.pone.0006085.s005

DOI: 10.1371/journal.pone.0006085.s006

DOI: 10.1371/journal.pone.0006085.s007

DOI: 10.1371/journal.pone.0006085.s008

Language: English

Publisher: Public Library of Science (PLoS)

Publication Date: 2009

detail.hit.zdb_id: 2267670-3

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American Gut: an Open Platform for Citizen Science Microbiome Research

McDonald, Daniel ; Hyde, Embriette ; Debelius, Justine W. ; [et al.]

American Society for Microbiology ; 2018

In: mSystems Vol. 3, No. 3 ( 2018-06-26)

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In: mSystems, American Society for Microbiology, Vol. 3, No. 3 ( 2018-06-26)

Abstract: Although much work has linked the human microbiome to specific phenotypes and lifestyle variables, data from different projects have been challenging to integrate and the extent of microbial and molecular diversity in human stool remains unknown. Using standardized protocols from the Earth Microbiome Project and sample contributions from over 10,000 citizen-scientists, together with an open research network, we compare human microbiome specimens primarily from the United States, United Kingdom, and Australia to one another and to environmental samples. Our results show an unexpected range of beta-diversity in human stool microbiomes compared to environmental samples; demonstrate the utility of procedures for removing the effects of overgrowth during room-temperature shipping for revealing phenotype correlations; uncover new molecules and kinds of molecular communities in the human stool metabolome; and examine emergent associations among the microbiome, metabolome, and the diversity of plants that are consumed (rather than relying on reductive categorical variables such as veganism, which have little or no explanatory power). We also demonstrate the utility of the living data resource and cross-cohort comparison to confirm existing associations between the microbiome and psychiatric illness and to reveal the extent of microbiome change within one individual during surgery, providing a paradigm for open microbiome research and education. IMPORTANCE We show that a citizen science, self-selected cohort shipping samples through the mail at room temperature recaptures many known microbiome results from clinically collected cohorts and reveals new ones. Of particular interest is integrating n = 1 study data with the population data, showing that the extent of microbiome change after events such as surgery can exceed differences between distinct environmental biomes, and the effect of diverse plants in the diet, which we confirm with untargeted metabolomics on hundreds of samples.

Type of Medium: Online Resource

ISSN: 2379-5077

URL: Article

DOI: 10.1128/mSystems.00031-18

Language: English

Publisher: American Society for Microbiology

Publication Date: 2018

detail.hit.zdb_id: 2844333-0

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Insights into the evolution of Darwin’s finches from comparative analysis of the Geospiza magnirostris genome sequence

Rands, Chris M ; Darling, Aaron ; Fujita, Matthew ; [et al.]

Springer Science and Business Media LLC ; 2013

In: BMC Genomics Vol. 14, No. 1 ( 2013-12)

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In: BMC Genomics, Springer Science and Business Media LLC, Vol. 14, No. 1 ( 2013-12)

Abstract: A classical example of repeated speciation coupled with ecological diversification is the evolution of 14 closely related species of Darwin’s (Galápagos) finches (Thraupidae, Passeriformes). Their adaptive radiation in the Galápagos archipelago took place in the last 2–3 million years and some of the molecular mechanisms that led to their diversification are now being elucidated. Here we report evolutionary analyses of genome of the large ground finch, Geospiza magnirostris . Results 13,291 protein-coding genes were predicted from a 991.0 Mb G. magnirostris genome assembly. We then defined gene orthology relationships and constructed whole genome alignments between the G. magnirostris and other vertebrate genomes. We estimate that 15% of genomic sequence is functionally constrained between G. magnirostris and zebra finch. Genic evolutionary rate comparisons indicate that similar selective pressures acted along the G. magnirostris and zebra finch lineages suggesting that historical effective population size values have been similar in both lineages. 21 otherwise highly conserved genes were identified that each show evidence for positive selection on amino acid changes in the Darwin's finch lineage. Two of these genes ( Igf2r and Pou1f1 ) have been implicated in beak morphology changes in Darwin’s finches. Five of 47 genes showing evidence of positive selection in early passerine evolution have cilia related functions, and may be examples of adaptively evolving reproductive proteins. Conclusions These results provide insights into past evolutionary processes that have shaped G. magnirostris genes and its genome, and provide the necessary foundation upon which to build population genomics resources that will shed light on more contemporaneous adaptive and non-adaptive processes that have contributed to the evolution of the Darwin’s finches.

Type of Medium: Online Resource

ISSN: 1471-2164

URL: Article

DOI: 10.1186/1471-2164-14-95

Language: English

Publisher: Springer Science and Business Media LLC

Publication Date: 2013

detail.hit.zdb_id: 2041499-7

SSG: 12

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Macronuclear Genome Sequence of the Ciliate Tetrahymena thermophila, a Model Eukaryote

Eisen, Jonathan A ; Coyne, Robert S ; Wu, Martin ; [et al.]

Public Library of Science (PLoS) ; 2006

In: PLoS Biology Vol. 4, No. 9 ( 2006-8-29), p. e286-

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In: PLoS Biology, Public Library of Science (PLoS), Vol. 4, No. 9 ( 2006-8-29), p. e286-

Type of Medium: Online Resource

ISSN: 1545-7885

URL: Article

DOI: 10.1371/journal.pbio.0040286

DOI: 10.1371/journal.pbio.0040286.g001

DOI: 10.1371/journal.pbio.0040286.g002

DOI: 10.1371/journal.pbio.0040286.g003

DOI: 10.1371/journal.pbio.0040286.g004

DOI: 10.1371/journal.pbio.0040286.g005

DOI: 10.1371/journal.pbio.0040286.g006

DOI: 10.1371/journal.pbio.0040286.g007

DOI: 10.1371/journal.pbio.0040286.t001

DOI: 10.1371/journal.pbio.0040286.t002

DOI: 10.1371/journal.pbio.0040286.t003

DOI: 10.1371/journal.pbio.0040286.t004

DOI: 10.1371/journal.pbio.0040286.t005

DOI: 10.1371/journal.pbio.0040286.t006

DOI: 10.1371/journal.pbio.0040286.t007

DOI: 10.1371/journal.pbio.0040286.t008

DOI: 10.1371/journal.pbio.0040286.sg001

DOI: 10.1371/journal.pbio.0040286.sg002

DOI: 10.1371/journal.pbio.0040286.sg003

DOI: 10.1371/journal.pbio.0040286.sg004

DOI: 10.1371/journal.pbio.0040286.sg005

DOI: 10.1371/journal.pbio.0040286.sg006

DOI: 10.1371/journal.pbio.0040286.sg007

DOI: 10.1371/journal.pbio.0040286.st001

DOI: 10.1371/journal.pbio.0040286.st002

DOI: 10.1371/journal.pbio.0040286.st003

DOI: 10.1371/journal.pbio.0040286.st004

DOI: 10.1371/journal.pbio.0040286.st005

DOI: 10.1371/journal.pbio.0040286.st006

DOI: 10.1371/journal.pbio.0040286.st007

DOI: 10.1371/journal.pbio.0040286.st008

DOI: 10.1371/journal.pbio.0040286.st009

DOI: 10.1371/journal.pbio.0040286.st010

DOI: 10.1371/journal.pbio.0040286.st011

DOI: 10.1371/journal.pbio.0040286.st012

DOI: 10.1371/journal.pbio.0040286.st013

DOI: 10.1371/journal.pbio.0040286.st014

DOI: 10.1371/journal.pbio.0040286.st015

DOI: 10.1371/journal.pbio.0040286.st016

DOI: 10.1371/journal.pbio.0040286.st017

Language: English

Publisher: Public Library of Science (PLoS)

Publication Date: 2006

detail.hit.zdb_id: 2126773-X

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Genome sequence of the human malaria parasite Plasmodium falciparum

Gardner, Malcolm J. ; Hall, Neil ; Fung, Eula ; [et al.]

Springer Science and Business Media LLC ; 2002

In: Nature Vol. 419, No. 6906 ( 2002-10), p. 498-511

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In: Nature, Springer Science and Business Media LLC, Vol. 419, No. 6906 ( 2002-10), p. 498-511

Type of Medium: Online Resource

ISSN: 0028-0836 , 1476-4687

URL: Article

DOI: 10.1038/nature01097

RVK:

TA 1000

RVK:

UA 1000

RVK:

WA 15000

Language: English

Publisher: Springer Science and Business Media LLC

Publication Date: 2002

detail.hit.zdb_id: 120714-3

detail.hit.zdb_id: 1413423-8

SSG: 11

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The genome sequence of Bacillus anthracis Ames and comparison to closely related bacteria

Read, Timothy D. ; Peterson, Scott N. ; Tourasse, Nicolas ; [et al.]

Springer Science and Business Media LLC ; 2003

In: Nature Vol. 423, No. 6935 ( 2003-5), p. 81-86

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In: Nature, Springer Science and Business Media LLC, Vol. 423, No. 6935 ( 2003-5), p. 81-86

Type of Medium: Online Resource

ISSN: 0028-0836 , 1476-4687

URL: Article

DOI: 10.1038/nature01586

RVK:

TA 1000

RVK:

UA 1000

RVK:

WA 15000

Language: English

Publisher: Springer Science and Business Media LLC

Publication Date: 2003

detail.hit.zdb_id: 120714-3

detail.hit.zdb_id: 1413423-8

SSG: 11

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Draft Genome Sequence of the Pyridinediol-Fermenting Bacterium Synergistes jonesii 78-1

Holland-Moritz, Hannah E. ; Coil, David A. ; Badger, Jonathan H. ; [et al.]

American Society for Microbiology ; 2014

In: Genome Announcements Vol. 2, No. 4 ( 2014-08-28)

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In: Genome Announcements, American Society for Microbiology, Vol. 2, No. 4 ( 2014-08-28)

Abstract: Here we present the draft genome of Synergistes jonesii 78-1, ATCC 49833, a member of the Synergistes phylum. This organism was isolated from the rumen of a Hawaiian goat and ferments pyridinediols. The assembly contains 2,747,397 bp in 61 contigs.

Type of Medium: Online Resource

ISSN: 2169-8287

URL: Article

DOI: 10.1128/genomeA.00833-14

Language: English

Publisher: American Society for Microbiology

Publication Date: 2014

detail.hit.zdb_id: 2968655-6

detail.hit.zdb_id: 2704277-7

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Functional Biogeography of Ocean Microbes Revealed through Non-Negative Matrix Factorization

Jiang, Xingpeng ; Langille, Morgan G. I. ; Neches, Russell Y. ; [et al.]

Public Library of Science (PLoS) ; 2012

In: PLoS ONE Vol. 7, No. 9 ( 2012-9-18), p. e43866-

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In: PLoS ONE, Public Library of Science (PLoS), Vol. 7, No. 9 ( 2012-9-18), p. e43866-

Type of Medium: Online Resource

ISSN: 1932-6203

URL: Article

DOI: 10.1371/journal.pone.0043866

DOI: 10.1371/journal.pone.0043866.s001

DOI: 10.1371/journal.pone.0043866.s002

DOI: 10.1371/journal.pone.0043866.s003

DOI: 10.1371/journal.pone.0043866.s004

DOI: 10.1371/journal.pone.0043866.s005

DOI: 10.1371/journal.pone.0043866.s006

DOI: 10.1371/journal.pone.0043866.s007

DOI: 10.1371/journal.pone.0043866.s008

DOI: 10.1371/journal.pone.0043866.s009

DOI: 10.1371/journal.pone.0043866.s010

Language: English

Publisher: Public Library of Science (PLoS)

Publication Date: 2012

detail.hit.zdb_id: 2267670-3

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