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1

Experimental and analytical tools for studying the human microbiome

Kuczynski, Justin, Lauber, Christian L., Walters, William A., Parfrey, Laura Wegener, Clemente, José C., Gevers, Dirk, Knight, Rob

Journal:

Nature Reviews Genetics

Year:

2011

Language:

english

File:

PDF, 743 KB

english, 2011

2

The Impact of the Gut Microbiota on Human Health: An Integrative View

Jose C. Clemente, Luke K. Ursell, Laura Wegener Parfrey, Rob Knight

Journal:

Year:

2012

Language:

english

File:

PDF, 635 KB

english, 2012

3

A microbial clock provides an accurate estimate of the postmortem interval in a mouse model system

Metcalf, Jessica L, Wegener Parfrey, Laura, Gonzalez, Antonio, Lauber, Christian L, Knights, Dan, Ackermann, Gail, Humphrey, Gregory C, Gebert, Matthew J, Van Treuren, Will, Berg-Lyons, Donna, Keepers

Journal:

Year:

2013

Language:

english

File:

PDF, 2.08 MB

english, 2013

4

Bacterial diversification through geological time

Louca, Stilianos, Shih, Patrick M., Pennell, Matthew W., Fischer, Woodward W., Parfrey, Laura Wegener, Doebeli, Michael

Journal:

Nature Ecology & Evolution

Year:

2018

Language:

english

File:

PDF, 2.32 MB

english, 2018

5

Bacterial density rather than diversity correlates with hatching success across different avian species

Peralta-Sánchez, Juan Manuel, Martín-Platero, Antonio Manuel, Wegener-Parfrey, Laura, Martínez-Bueno, Manuel, Rodríguez-Ruano, Sonia, Navas-Molina, José Antonio, Vázquez-Baeza, Yoshiki, Martín-Gálvez,

Journal:

FEMS Microbiology Ecology

Year:

2018

Language:

english

File:

PDF, 1.35 MB

english, 2018

6

Estimating the timing of early eukaryotic diversification with multigene molecular clocks

Laura Wegener Parfrey, Daniel J. G. Lahr, Andrew H. Knoll and Laura A. Katz

Journal:

Proceedings of the National Academy of Sciences

Year:

2011

Language:

english

File:

PDF, 1.27 MB

english, 2011

7

Alternate life history phases of a common seaweed have distinct microbial surface communities

Lemay, Matthew A, Martone, Patrick T, Hind, Katharine R, Lindstrom, Sandra C, Wegener Parfrey, Laura

Journal:

Molecular Ecology

Year:

2018

Language:

english

File:

PDF, 1.45 MB

english, 2018

8

Microeukaryotic Communities Associated with the Seagrass Zostera marina are Spatially Structured

Trevizan Segovia, Bianca, SandersâSmith, Rhea, Adamczyk, Emily M., Forbes, Coreen, HessingâLewis, Margot, OâConnor, Mary I., Parfrey, Laura Wegener

Journal:

Journal of Eukaryotic Microbiology

Year:

2020

File:

PDF, 18.65 MB

2020

9

Su1926 Defining a Mosaic of Functional Microbial Communities at the Human Mucosal Surface, and Their Association With IBD

Tong, Maomeng, Li, XiaoXiao, Parfrey, Laura W., Ippoliti, Andrew, Wei, Bo, McGovern, Dermot P., Frank, Daniel, Li, Ellen, Knight, Rob, Braun, Jonathan

Journal:

Gastroenterology

Year:

2012

Language:

english

File:

PDF, 100 KB

english, 2012

10

Communities of microbial eukaryotes in the mammalian gut within the context of environmental eukaryotic diversity

Parfrey, Laura Wegener, Walters, William A., Lauber, Christian L., Clemente, Jose C., Berg-Lyons, Donna, Teiling, Clotilde, Kodira, Chinnappa, Mohiuddin, Mohammed, Brunelle, Julie, Driscoll, Mark, Fie

Journal:

Frontiers in Microbiology

Year:

2014

Language:

english

File:

PDF, 33.73 MB

english, 2014

11

Correcting for 16S rRNA gene copy numbers in microbiome surveys remains an unsolved problem

Louca, Stilianos, Doebeli, Michael, Parfrey, Laura Wegener

Journal:

Year:

2018

Language:

english

File:

PDF, 1.03 MB

english, 2018

12

The chastity of amoebae: re-evaluating evidence for sex in amoeboid organisms

Daniel J. G. Lahr, Laura Wegener Parfrey, Edward A. D. Mitchell, Laura A. Katz and Enrique Lara

Journal:

Proceedings Biological Sciences

Year:

2011

Language:

english

File:

PDF, 2.17 MB

english, 2011

13

Broadly Sampled Multigene Analyses Yield a Well-Resolved Eukaryotic Tree of Life

Laura Wegener Parfrey, Jessica Grant, Yonas I. Tekle, Erica Lasek-Nesselquist, Hilary G. Morrison, Mitchell L. Sogin, David J. Patterson, Laura A. Katz and Cécile Ané

Journal:

Systematic Biology

Year:

2010

Language:

english

File:

PDF, 3.17 MB

english, 2010

14

Phylogeny and Ultrastructure of Miliammina fusca: Evidence for Secondary Loss of Calcification in a Miliolid Foraminifer

ANDREA HABURA, SUSAN T. GOLDSTEIN, LAURA W. PARFREY, SAMUEL S. BOWSER

Journal:

Journal of Eukaryotic Microbiology

Year:

2006

Language:

english

File:

PDF, 727 KB

english, 2006

15

Combined phylogenetic and genomic approaches for the high-throughput study of microbial habitat adaptation

Jesse R.R. Zaneveld, Laura Wegener Parfrey, Will Van Treuren, Catherine Lozupone, Jose C. Clemente, Dan Knights, Jesse Stombaugh, Justin Kuczynski, Rob Knight

Journal:

Trends in Microbiology

Year:

2011

Language:

english

File:

PDF, 637 KB

english, 2011

16

Molecular Data Are Transforming Hypotheses on the Origin and Diversification of Eukaryotes

Yonas I. Tekle, Laura Wegener Parfrey, Laura A. Katz

Journal:

Year:

2009

Language:

english

File:

PDF, 680 KB

english, 2009

17

Incubation with macroalgae induces large shifts in water column microbiota, but minor changes to the epibiota of co-occurring macroalgae

Chen, Melissa Y, Parfrey, Laura Wegener

Journal:

Molecular Ecology

Year:

2018

Language:

english

File:

PDF, 1.41 MB

english, 2018

18

Microbial Eukaryotes in the Human Microbiome: Ecology, Evolution, and Future Directions

Parfrey, Laura Wegener, Walters, William A., Knight, Rob

Journal:

Frontiers in Microbiology

Year:

2011

Language:

english

File:

PDF, 324 KB

english, 2011

19

Convergence of gut microbiomes in myrmecophagous mammals

Delsuc, Frédéric, Metcalf, Jessica L., Wegener Parfrey, Laura, Song, Se Jin, González, Antonio, Knight, Rob

Journal:

Molecular Ecology

Year:

2014

Language:

english

File:

PDF, 964 KB

english, 2014

20

Is Host Filtering the Main Driver of Phylosymbiosis across the Tree of Life?

Mazel, Florent, Davis, Katherine M., Loudon, Andrew, Kwong, Waldan K., Groussin, Mathieu, Parfrey, Laura Wegener, Bik, Holly

Journal:

Year:

2018

File:

PDF, 756 KB

2018

21

Morphological complexity affects the diversity of marine microbiomes

Lemay, Matthew A., Chen, Melissa Y., Mazel, Florent, Hind, Katharine R., Starko, Samuel, Keeling, Patrick J., Martone, Patrick T., Parfrey, Laura Wegener

Journal:

The ISME Journal

Year:

2020

File:

PDF, 3.09 MB

2020

22

HAIRLESS LOWER LIMBS AND OCCLUSIVE ARTERIAL DISEASE

Parfrey, Nollaig, Ryan, JohnF., Shanahan, Laura, Brady, MichaelP.

Journal:

Year:

1979

Language:

english

File:

PDF, 120 KB

english, 1979

23

Multicellularity arose several times in the evolution of eukaryotes (Response to DOI 10.1002/bies.201100187)

Parfrey, Laura Wegener, Lahr, Daniel J. G.

Journal:

Year:

2013

Language:

english

File:

PDF, 315 KB

english, 2013

24

Vertebrate Hosts as Islands: Dynamics of Selection, Immigration, Loss, Persistence, and Potential Function of Bacteria on Salamander Skin

Loudon, Andrew H., Venkataraman, Arvind, Van Treuren, William, Woodhams, Douglas C., Parfrey, Laura Wegener, McKenzie, Valerie J., Knight, Rob, Schmidt, Thomas M., Harris, Reid N.

Journal:

Frontiers in Microbiology

Year:

2016

Language:

english

File:

PDF, 929 KB

english, 2016

25

Effects of forced taxonomic transitions on metabolic composition and function in microbial microcosms

Louca, Stilianos, Rubin, Ilan N., Madilao, Lufiani L., Bohlmann, JÃ¶rg, Doebeli, Michael, Parfrey, Laura Wegener

Journal:

Environmental Microbiology Reports

Year:

2020

File:

PDF, 9.77 MB

2020

26

Human-Associated Microbial Signatures: Examining Their Predictive Value

Dan Knights, Laura Wegener Parfrey, Jesse Zaneveld, Catherine Lozupone, Rob Knight

Journal:

Cell Host & Microbe

Year:

2011

Language:

english

File:

PDF, 413 KB

english, 2011

27

Changes in bacterial and eukaryotic communities during sewage decomposition in Mississippi river water

Korajkic, Asja, Parfrey, Laura Wegener, McMinn, Brian R., Baeza, Yoshiki Vazquez, VanTeuren, Will, Knight, Rob, Shanks, Orin C.

Journal:

Year:

2015

Language:

english

File:

PDF, 1.43 MB

english, 2015

28

Microbial community dynamics and effect of environmental microbial reservoirs on red-backed salamanders (Plethodon cinereus)

Loudon, Andrew H, Woodhams, Douglas C, Parfrey, Laura Wegener, Archer, Holly, Knight, Rob, McKenzie, Valerie, Harris, Reid N

Journal:

The ISME Journal

Year:

2014

Language:

english

File:

PDF, 1.64 MB

english, 2014

29

The benign helminth Hymenolepis diminuta ameliorates chemically induced colitis in a rat model system

Jirků Pomajbíková, Kateřina, Jirků, Milan, Levá, Jana, Sobotková, Kateřina, Morien, Evan, Parfrey, Laura Wegener

Journal:

Year:

2018

Language:

english

File:

PDF, 624 KB

english, 2018

30

High taxonomic variability despite stable functional structure across microbial communities

Louca, Stilianos, Jacques, Saulo M. S., Pires, Aliny P. F., Leal, Juliana S., Srivastava, Diane S., Parfrey, Laura Wegener, Farjalla, Vinicius F., Doebeli, Michael

Journal:

Nature Ecology & Evolution

Year:

2016

Language:

english

File:

PDF, 2.96 MB

english, 2016

31

Global biogeography of highly diverse protistan communities in soil

Bates, Scott T, Clemente, Jose C, Flores, Gilberto E, Walters, William Anthony, Parfrey, Laura Wegener, Knight, Rob, Fierer, Noah

Journal:

The ISME Journal

Year:

2013

Language:

english

File:

PDF, 1013 KB

english, 2013

32

Subulatomonas tetraspora nov. gen. nov. sp. is a Member of a Previously Unrecognized Major Clade of Eukaryotes

Laura A. Katz, Jessica Grant, Laura Wegener Parfrey, Anastasia Gant, Charles J. O’Kelly, O. Roger Anderson, Robert E. Molestina, Thomas Nerad

Journal:

Year:

2011

Language:

english

File:

PDF, 657 KB

english, 2011

33

Defining the human microbiome

Luke K Ursell, Jessica L Metcalf, Laura Wegener Parfrey, Rob Knight

Journal:

Nutrition Reviews

Year:

2012

Language:

english

File:

PDF, 131 KB

english, 2012

34

Evaluating Support for the Current Classification of Eukaryotic Diversity

Parfrey, Laura Wegener, Barbero, Erika, Lasser, Elyse, Dunthorn, Micah, Bhattacharya, Debashish, Patterson, David J., Katz, Laura A.

Journal:

Year:

2006

Language:

english

File:

PDF, 636 KB

english, 2006

35

Turning the Crown Upside Down: Gene Tree Parsimony Roots the Eukaryotic Tree of Life

Laura A. Katz, Jessica R. Grant, Laura Wegener Parfrey and J. Gordon Burleigh

Journal:

Systematic Biology

Year:

2012

Language:

english

File:

PDF, 1.96 MB

english, 2012

36

Mock communities highlight the diversity of host-associated eukaryotes

Wegener Parfrey, Laura

Journal:

Molecular Ecology

Year:

2015

Language:

english

File:

PDF, 357 KB

english, 2015

37

Diverse Bacteria Utilize Alginate Within the Microbiome of the Giant Kelp Macrocystis pyrifera

Lin, Jordan D., Lemay, Matthew A., Parfrey, Laura W.

Journal:

Frontiers in Microbiology

Year:

2018

Language:

english

File:

PDF, 5.85 MB

english, 2018

38

Host-Specificity and Core Taxa of Seagrass Leaf Microbiome Identified Across Tissue Age and Geographical Regions

Sanders-Smith, Rhea, Segovia, Bianca Trevizan, Forbes, Coreen, Hessing-Lewis, Margot, Morien, Evan, Lemay, Matthew A., O'Connor, Mary I., Parfrey, Laura Wegener

Journal:

Frontiers in Ecology and Evolution

Year:

2020

File:

PDF, 1.48 MB

2020

39

Evaluating rodent experimental models for studies of Blastocystis ST1

Růžková, Jiřina, Květoňová, Dana, Jirků, Milan, Lhotská, Zuzana, Stensvold, Christen Rune, Parfrey, Laura Wegener, Jirků Pomajbíková, Kateřina

Journal:

Experimental Parasitology

Year:

2018

Language:

english

File:

PDF, 727 KB

english, 2018

40

The amphibian skin-associated microbiome across species, space and life history stages

Kueneman, Jordan G., Parfrey, Laura Wegener, Woodhams, Douglas C., Archer, Holly M., Knight, Rob, McKenzie, Valerie J.

Journal:

Molecular Ecology

Year:

2014

Language:

english

File:

PDF, 849 KB

english, 2014

41

UniEuk : Time to Speak a Common Language in Protistology!

Berney, Cédric, Ciuprina, Andreea, Bender, Sara, Brodie, Juliet, Edgcomb, Virginia, Kim, Eunsoo, Rajan, Jeena, Parfrey, Laura Wegener, Adl, Sina, Audic, Stéphane, Bass, David, Caron, David A., Cochran

Journal:

Journal of Eukaryotic Microbiology

Year:

2017

Language:

english

File:

PDF, 1.24 MB

english, 2017

42

Introduction: The host-associated microbiome: Pattern, process and function

Parfrey, Laura Wegener, Moreau, Corrie S., Russell, Jacob A.

Journal:

Molecular Ecology

Year:

2018

Language:

english

File:

PDF, 512 KB

english, 2018

43

Deconstructing the Bat Skin Microbiome: Influences of the Host and the Environment

Avena, Christine V., Parfrey, Laura Wegener, Leff, Jonathan W., Archer, Holly M., Frick, Winifred F., Langwig, Kate E., Kilpatrick, A. Marm, Powers, Karen E., Foster, Jeffrey T., McKenzie, Valerie J.

Journal:

Frontiers in Microbiology

Year:

2016

Language:

english

File:

PDF, 2.36 MB

english, 2016

44

Are Human Intestinal Eukaryotes Beneficial or Commensals?

Lukeš, Julius, Stensvold, Christen Rune, Jirků-Pomajbíková, Kateřina, Wegener Parfrey, Laura, Knoll, Laura J

Journal:

Year:

2015

Language:

english

File:

PDF, 1.19 MB

english, 2015

45

Sympatric kelp species share a large portion of their surface bacterial communities

Lemay, Matthew A, Martone, Patrick T, Keeling, Patrick, Burt, Jenn M., Krumhansl, Kira A, Sanders, Rhea D, Wegener Parfrey, Laura

Journal:

Environmental Microbiology

Year:

2017

Language:

english

File:

PDF, 1.34 MB

english, 2017

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