-
1
-
-
80051672378
-
Animal behaviour meets microbial ecology
-
Archie, E. A., and Theis, K. R. (2011). Animal behaviour meets microbial ecology. Anim. Behav. 82, 425-436. doi: 10.1016/j.anbehav.2011.05.029
-
(2011)
Anim. Behav
, vol.82
, pp. 425-436
-
-
Archie, E.A.1
Theis, K.R.2
-
2
-
-
0032558102
-
Host densities as determinants of abundance in parasite communities
-
Arneberg, P., Skorping, A., Grenfell, B., and Read, A. F. (1998). Host densities as determinants of abundance in parasite communities. Proc Biol. Sci. 265, 1283-1289. doi: 10.1098/rspb.1998.0431
-
(1998)
Proc Biol. Sci
, vol.265
, pp. 1283-1289
-
-
Arneberg, P.1
Skorping, A.2
Grenfell, B.3
Read, A.F.4
-
3
-
-
79551500179
-
Phylogenetic diversity and dietary association of rumen Treponema revealed using group-specific 16S rRNA gene-based analysis
-
Bekele, A. Z., Koike, S., and Kobayashi, Y. (2011). Phylogenetic diversity and dietary association of rumen Treponema revealed using group-specific 16S rRNA gene-based analysis. FEMS Microbiol. Lett. 316, 51-60. doi: 10.1111/j.1574-6968.2010.02191.x
-
(2011)
FEMS Microbiol. Lett
, vol.316
, pp. 51-60
-
-
Bekele, A.Z.1
Koike, S.2
Kobayashi, Y.3
-
4
-
-
84943580979
-
Metaxa2: improved identification and taxonomic classification of small and large subunit rRNA in metagenomic data
-
Bengtsson-Palme, J., Hartmann, M., Eriksson, K. M., Pal, C., Thorell, K., Larsson, D. G., et al. (2015). Metaxa2: improved identification and taxonomic classification of small and large subunit rRNA in metagenomic data. Mol. Ecol. Resour. 15, 1403-1414. doi: 10.1111/1755-0998.12399
-
(2015)
Mol. Ecol. Resour
, vol.15
, pp. 1403-1414
-
-
Bengtsson-Palme, J.1
Hartmann, M.2
Eriksson, K.M.3
Pal, C.4
Thorell, K.5
Larsson, D.G.6
-
5
-
-
0004049988
-
The control of the false discovery rate in multiple testing under dependency
-
Benjamini, B. Y., and Yekutieli, D. (2001). The control of the false discovery rate in multiple testing under dependency. Ann. Stat. 473, 174-180. doi: 10.1186/1471-2105-9-114
-
(2001)
Ann. Stat
, vol.473
, pp. 174-180
-
-
Benjamini, B.Y.1
Yekutieli, D.2
-
6
-
-
0003051020
-
'Helminth communities in avian hosts: determinants of pattern'
-
eds G. Esch, A. O. Bush, and J. M. Aho (London: Chapman and Hall)
-
Bush, A. O. (1990). "Helminth communities in avian hosts: determinants of pattern," in Parasite Communities: Patterns and Processes, eds G. Esch, A. O. Bush, and J. M. Aho (London: Chapman and Hall), 197-232.
-
(1990)
Parasite Communities: Patterns and Processes
, pp. 197-232
-
-
Bush, A.O.1
-
7
-
-
84867745001
-
Host genetic and environmental effects on mouse intestinal microbiota
-
Campbell, J. H., Foster, C. M., Vishnivetskaya, T., Campbell, A. G., Yang, Z. K., Wymore, A., et al. (2012). Host genetic and environmental effects on mouse intestinal microbiota. ISME J. 6, 2033-2044. doi: 10.1038/ismej.2012.54
-
(2012)
ISME J
, vol.6
, pp. 2033-2044
-
-
Campbell, J.H.1
Foster, C.M.2
Vishnivetskaya, T.3
Campbell, A.G.4
Yang, Z.K.5
Wymore, A.6
-
8
-
-
84925547363
-
Exercise and associated dietary extremes impact on gut microbial diversity
-
Clarke, S. F., Murphy, E. F., O'Sullivan, O., Lucey, A. J., Humphreys, M., Hogan, A., et al. (2014). Exercise and associated dietary extremes impact on gut microbial diversity. Gut 63, 1913-1920. doi: 10.1136/gutjnl-2013-306541
-
(2014)
Gut
, vol.63
, pp. 1913-1920
-
-
Clarke, S.F.1
Murphy, E.F.2
O'Sullivan, O.3
Lucey, A.J.4
Humphreys, M.5
Hogan, A.6
-
9
-
-
84922023904
-
Metatranscriptomic analyses of plant cell wall polysaccharide degradation by microorganisms in cow rumen
-
Dai, X., Tian, Y., Li, J., Su, X., Wang, X., Zhao, S., et al. (2014). Metatranscriptomic analyses of plant cell wall polysaccharide degradation by microorganisms in cow rumen. Appl. Environ. Microbiol. 81, 1375-1386. doi: 10.1128/AEM.03682-14
-
(2014)
Appl. Environ. Microbiol
, vol.81
, pp. 1375-1386
-
-
Dai, X.1
Tian, Y.2
Li, J.3
Su, X.4
Wang, X.5
Zhao, S.6
-
10
-
-
84864661768
-
Factors associated with the diversification of the gut microbial communities within chimpanzees from Gombe National Park
-
Degnan, P. H., Pusey, A. E., Lonsdorf, E. V., Goodalld, J., Wroblewski, E. E., Wilson, M. L., et al. (2012). Factors associated with the diversification of the gut microbial communities within chimpanzees from Gombe National Park. Proc. Natl. Acad. Sci. U. S. A. 109, 13034-13039. doi: 10.1073/pnas.1110994109
-
(2012)
Proc. Natl. Acad. Sci. U. S. A
, vol.109
, pp. 13034-13039
-
-
Degnan, P.H.1
Pusey, A.E.2
Lonsdorf, E.V.3
Goodalld, J.4
Wroblewski, E.E.5
Wilson, M.L.6
-
11
-
-
84861557467
-
Molecular ecological network analyses
-
Deng, Y., Jiang, Y. H., Yang, Y., He, Z., Luo, F., and Zhou, J. (2012). Molecular ecological network analyses. BMC Bioinformatics 13:113. doi: 10.1186/1471-2105-13-113
-
(2012)
BMC Bioinformatics
, vol.13
, pp. 113
-
-
Deng, Y.1
Jiang, Y.H.2
Yang, Y.3
He, Z.4
Luo, F.5
Zhou, J.6
-
12
-
-
84941299696
-
Diet specialization selects for an unusual and simplified gut microbiota in two-and three-toed sloths
-
Dill-McFarland, K. A., Weimer, P. J., Pauli, J. N., Peery, M. Z., and Suen, G. (2015). Diet specialization selects for an unusual and simplified gut microbiota in two-and three-toed sloths. Environ. Microbiol. 18, 1391-1402. doi: 10.1111/1462-2920.13022
-
(2015)
Environ. Microbiol
, vol.18
, pp. 1391-1402
-
-
Dill-McFarland, K.A.1
Weimer, P.J.2
Pauli, J.N.3
Peery, M.Z.4
Suen, G.5
-
13
-
-
1142306112
-
VEGAN, a package of R functions for community ecology
-
Dixon, P. (2003). VEGAN, a package of R functions for community ecology. J. Veg. Sci. 14, 927-930. doi: 10.1111/j.1654-1103.2003.tb02228.x
-
(2003)
J. Veg. Sci
, vol.14
, pp. 927-930
-
-
Dixon, P.1
-
14
-
-
0031729804
-
Social and ecological influences on dispersal and philopatry in the plateau pika (Ochotona curzoniae)
-
Dobson, F. S., Smith, A. T., and Wang, X. G. (1998). Social and ecological influences on dispersal and philopatry in the plateau pika (Ochotona curzoniae). Behav. Ecol. 9, 622-635. doi: 10.1007/s10344-011-0574-2
-
(1998)
Behav. Ecol
, vol.9
, pp. 622-635
-
-
Dobson, F.S.1
Smith, A.T.2
Wang, X.G.3
-
15
-
-
0036739483
-
Roseburia intestinalis sp. nov., a novel saccharolytic, butyrate-producing bacterium from human faeces
-
Duncan, S. H. (2002). Roseburia intestinalis sp. nov., a novel saccharolytic, butyrate-producing bacterium from human faeces. Int. J. Syst. Evol. Microbiol. 52, 1615-1620. doi: 10.1099/ijs.0.02143-0
-
(2002)
Int. J. Syst. Evol. Microbiol
, vol.52
, pp. 1615-1620
-
-
Duncan, S.H.1
-
16
-
-
79961181125
-
UCHIME improves sensitivity and speed of chimera detection
-
Edgar, R. C., Haas, B. J., Clemente, J. C., Quince, C., and Knight, R. (2011). UCHIME improves sensitivity and speed of chimera detection. Bioinformatics 27, 2194-2200. doi: 10.1093/bioinformatics/btr381
-
(2011)
Bioinformatics
, vol.27
, pp. 2194-2200
-
-
Edgar, R.C.1
Haas, B.J.2
Clemente, J.C.3
Quince, C.4
Knight, R.5
-
17
-
-
84938742846
-
Social and economic aspects of the transmission of pathogenic bacteria between wildlife and food animals: a thematic analysis of published research knowledge
-
Fournier, A., Young, I., Rajic, A., Greig, J., and LeJeune, J. (2015). Social and economic aspects of the transmission of pathogenic bacteria between wildlife and food animals: a thematic analysis of published research knowledge. Zoonoses Public Health 62, 417-428. doi: 10.1111/zph.12179
-
(2015)
Zoonoses Public Health
, vol.62
, pp. 417-428
-
-
Fournier, A.1
Young, I.2
Rajic, A.3
Greig, J.4
LeJeune, J.5
-
18
-
-
77956569409
-
Enterobacteriaceae act in concert with the gut microbiota to induce spontaneous and maternally transmitted colitis
-
Garrett, W. S., Gallini, C. A., Yatsunenko, T., Michaud, M., DuBois, A., Delaney, M. L., et al. (2010). Enterobacteriaceae act in concert with the gut microbiota to induce spontaneous and maternally transmitted colitis. Cell Host Microbe. 8, 292-300. doi: 10.1016/j.chom.2010.08.004
-
(2010)
Cell Host Microbe
, vol.8
, pp. 292-300
-
-
Garrett, W.S.1
Gallini, C.A.2
Yatsunenko, T.3
Michaud, M.4
DuBois, A.5
Delaney, M.L.6
-
19
-
-
84856957894
-
Inflammasome-mediated dysbiosis regulates progression of NAFLD and obesity
-
Henao-Mejia, J., Elinav, E., Jin, C., Hao, L., Mehal, W. Z., Strowig, T., et al. (2012). Inflammasome-mediated dysbiosis regulates progression of NAFLD and obesity. Nature 482, 179-185. doi: 10.1038/nature10809
-
(2012)
Nature
, vol.482
, pp. 179-185
-
-
Henao-Mejia, J.1
Elinav, E.2
Jin, C.3
Hao, L.4
Mehal, W.Z.5
Strowig, T.6
-
22
-
-
82755162640
-
Socially transmitted gut microbiota protect bumble bees against an intestinal parasite
-
Koch, H., and Schmid-Hempel, P. (2011). Socially transmitted gut microbiota protect bumble bees against an intestinal parasite. Proc. Natl. Acad. Sci. U.S.A. 108, 19288-19292. doi: 10.1073/pnas.1110474108
-
(2011)
Proc. Natl. Acad. Sci. U.S.A
, vol.108
, pp. 19288-19292
-
-
Koch, H.1
Schmid-Hempel, P.2
-
23
-
-
0023253520
-
Interactions between Treponema bryantii and cellulolytic bacteria in the in vitro degradation of straw cellulose
-
Kudo, H., Cheng, K., and Costerton, J. (1987). Interactions between Treponema bryantii and cellulolytic bacteria in the in vitro degradation of straw cellulose. Can. J. Microbiol. 33, 244-248. doi: 10.1139/m87-041
-
(1987)
Can. J. Microbiol
, vol.33
, pp. 244-248
-
-
Kudo, H.1
Cheng, K.2
Costerton, J.3
-
24
-
-
84884127512
-
Predictive functional profiling of microbial communities using 16S rRNA marker gene sequences
-
Langille, M. G., Zaneveld, J., Caporaso, J. G., McDonald, D., Knights, D., Reyes, J. A., et al. (2013). Predictive functional profiling of microbial communities using 16S rRNA marker gene sequences. Nat. biotech. 31, 814-821. doi: 10.1038/nbt.2676
-
(2013)
Nat. biotech
, vol.31
, pp. 814-821
-
-
Langille, M.G.1
Zaneveld, J.2
Caporaso, J.G.3
McDonald, D.4
Knights, D.5
Reyes, J.A.6
-
25
-
-
0003001085
-
Supply-side ecology
-
Lewin, R. (1986). Supply-side ecology. Science 234, 25-27. doi: 10.1126/science.234.4772.25
-
(1986)
Science
, vol.234
, pp. 25-27
-
-
Lewin, R.1
-
26
-
-
84973551979
-
Ecological function of plateau pika(Ochotona curzoniae)
-
Li, N., Li, H., Lei, G., and Zhou, Y. (2013). Ecological function of plateau pika(Ochotona curzoniae). Chinese J. Wildl. 34, 238-242. doi: 10.3969/j.issn.1000-0127.2013.04.013 (In Chinese).
-
(2013)
Chinese J. Wildl
, vol.34
, pp. 238-242
-
-
Li, N.1
Li, H.2
Lei, G.3
Zhou, Y.4
-
27
-
-
33745634395
-
Cd-hit: a fast program for clustering and comparing large sets of protein or nucleotide sequences
-
Li, W., and Godzik, A. (2006). Cd-hit: a fast program for clustering and comparing large sets of protein or nucleotide sequences. Bioinformatics 22, 1658-1659. doi: 10.1093/bioinformatics/btl158
-
(2006)
Bioinformatics
, vol.22
, pp. 1658-1659
-
-
Li, W.1
Godzik, A.2
-
28
-
-
38049093021
-
Access to mutualistic endosymbiotic microbes: an underappreciated benefit of group living
-
Lombardo, M. P. (2008). Access to mutualistic endosymbiotic microbes: an underappreciated benefit of group living. Behav. Ecol. Sociobiol. 62, 479-497. doi: 10.1007/s00265-007-0428-9
-
(2008)
Behav. Ecol. Sociobiol
, vol.62
, pp. 479-497
-
-
Lombardo, M.P.1
-
29
-
-
29144464937
-
UniFrac: a new phylogenetic method for comparing microbial communities
-
Lozupone, C., and Knight, R. (2005). UniFrac: a new phylogenetic method for comparing microbial communities. Appl. Environ. Microbiol. 71, 8228-8235. doi: 10.1128/AEM.71.12.8228-8235.2005
-
(2005)
Appl. Environ. Microbiol
, vol.71
, pp. 8228-8235
-
-
Lozupone, C.1
Knight, R.2
-
30
-
-
0242657434
-
Ecology of uncultivated oscillospira species in the rumen of cattle, sheep, and reindeer as assessed by microscopy and molecular approaches
-
Mackie, R. I., Aminov, R. I., Hu, W., Klieve, A. V., Ouwerkerk, D., Sundset, M. A., et al. (2003). Ecology of uncultivated oscillospira species in the rumen of cattle, sheep, and reindeer as assessed by microscopy and molecular approaches. Appl. Environ. Microbiol. 69, 6808-6815. doi: 10.1128/aem.69.11.6808-6815.2003
-
(2003)
Appl. Environ. Microbiol
, vol.69
, pp. 6808-6815
-
-
Mackie, R.I.1
Aminov, R.I.2
Hu, W.3
Klieve, A.V.4
Ouwerkerk, D.5
Sundset, M.A.6
-
31
-
-
80054913451
-
FLASH: fast length adjustment of short reads to improve genome assemblies
-
Magoc, T., and Salzberg, S. L. (2011). FLASH: fast length adjustment of short reads to improve genome assemblies. Bioinformatics 27, 2957-2963. doi: 10.1093/bioinformatics/btr507
-
(2011)
Bioinformatics
, vol.27
, pp. 2957-2963
-
-
Magoc, T.1
Salzberg, S.L.2
-
32
-
-
40349113425
-
The macaque gut microbiome in health, lentiviral infection, and chronic enterocolitis
-
McKenna, P., Hoffmann, C., Minkah, N., Aye, P. P., Lackner, A., Liu, Z., et al. (2008). The macaque gut microbiome in health, lentiviral infection, and chronic enterocolitis. PLoS Pathog 4:e20. doi: 10.1371/journal.ppat.0040020
-
(2008)
PLoS Pathog
, vol.4
-
-
McKenna, P.1
Hoffmann, C.2
Minkah, N.3
Aye, P.P.4
Lackner, A.5
Liu, Z.6
-
33
-
-
79959713078
-
The spread of fecally transmitted parasites in socially-structured populations
-
Nunn, C. L., Thrall, P. H., Leendertz, F. H., and Boesch, C. (2011). The spread of fecally transmitted parasites in socially-structured populations. PLoS ONE 6:e21677. doi: 10.1371/journal.pone.0021677
-
(2011)
PLoS ONE
, vol.6
-
-
Nunn, C.L.1
Thrall, P.H.2
Leendertz, F.H.3
Boesch, C.4
-
34
-
-
84864409908
-
Methods for large scale assessment of small mammal abundance in open habitats plateau pika (Ochotona curzoniae) in alpine grassland
-
Qu, J., Li, W., Yang, M., Li, K., and Zhang, Y. (2011). Methods for large scale assessment of small mammal abundance in open habitats plateau pika (Ochotona curzoniae) in alpine grassland. Pol. J. Ecol. 59, 829-833. Available online at: http://yadda.icm.edu.pl/yadda/element/bwmeta1.element.baztech-article-BGPK-3624-3980?q=9a4b265c-b46c-4216-ab40-c447add79f4c$2&qt=IN_PAGE
-
(2011)
Pol. J. Ecol
, vol.59
, pp. 829-833
-
-
Qu, J.1
Li, W.2
Yang, M.3
Li, K.4
Zhang, Y.5
-
35
-
-
0002641491
-
The plateau pika (Ochotona curzoniae) is a keystone species for biodiversity on the Tibetan plateau
-
Smith, A. T., and Foggin, J. M. (1999). The plateau pika (Ochotona curzoniae) is a keystone species for biodiversity on the Tibetan plateau. Anim. Conserv. 2, 235-240. doi: 10.1007/s13280-014-0568-x
-
(1999)
Anim. Conserv
, vol.2
, pp. 235-240
-
-
Smith, A.T.1
Foggin, J.M.2
-
36
-
-
0018722256
-
Enumeration and selective isolation of rumen spirochetes
-
Stanton, T., and Canale-Parola, E. (1979). Enumeration and selective isolation of rumen spirochetes. Appl. Environ. Microbiol. 38, 965-973.
-
(1979)
Appl. Environ. Microbiol
, vol.38
, pp. 965-973
-
-
Stanton, T.1
Canale-Parola, E.2
-
37
-
-
80053097826
-
Analysis of 16S rRNA amplicon sequencing options on the Roche/454 next-generation titanium sequencing platform
-
Tamaki, H., Wright, C. L., Li, X., Lin, Q., Hwang, C., Wang, S., et al. (2011). Analysis of 16S rRNA amplicon sequencing options on the Roche/454 next-generation titanium sequencing platform. PLoS ONE 6:e25263. doi: 10.1371/journal.pone.0025263
-
(2011)
PLoS ONE
, vol.6
-
-
Tamaki, H.1
Wright, C.L.2
Li, X.3
Lin, Q.4
Hwang, C.5
Wang, S.6
-
38
-
-
84925002456
-
Social networks predict gut microbiome composition in wild baboons
-
Tung, J., Barreiro, L. B., Burns, M. B., Grenier, J. C., Lynch, J., Grieneisen, L. E., et al. (2015). Social networks predict gut microbiome composition in wild baboons. eLife 4:e05224. doi: 10.7554/eLife.05224
-
(2015)
eLife
, vol.4
-
-
Tung, J.1
Barreiro, L.B.2
Burns, M.B.3
Grenier, J.C.4
Lynch, J.5
Grieneisen, L.E.6
-
39
-
-
84894235645
-
Linking social and pathogen transmission networks using microbial genetics in giraffe (Giraffa camelopardalis)
-
VanderWaal, K. L., Atwill, E. R., Isbell, L. A., and McCowan, B. (2014). Linking social and pathogen transmission networks using microbial genetics in giraffe (Giraffa camelopardalis). J. Anim. Ecol. 83, 406-414. doi: 10.1111/1365-2656.12137
-
(2014)
J. Anim. Ecol
, vol.83
, pp. 406-414
-
-
VanderWaal, K.L.1
Atwill, E.R.2
Isbell, L.A.3
McCowan, B.4
-
40
-
-
33750220705
-
Behavior patterns of plateau pika Ochotona curzoniae at different population densities
-
Wang, J., Wei, W., Zhang, Y., and Yin, B. (2005). Behavior patterns of plateau pika Ochotona curzoniae at different population densities. Acta Zool. Sinica 51, 598-607.
-
(2005)
Acta Zool. Sinica
, vol.51
, pp. 598-607
-
-
Wang, J.1
Wei, W.2
Zhang, Y.3
Yin, B.4
-
41
-
-
34548293679
-
Naive Bayesian classifier for rapid assignment of rRNA sequences into the new bacterial taxonomy
-
Wang, Q., Garrity, G. M., Tiedje, J. M., and Cole, J. R. (2007). Naive Bayesian classifier for rapid assignment of rRNA sequences into the new bacterial taxonomy. Appl. Environ. Microbiol. 73, 5261-5267. doi: 10.1128/AEM.00062-07
-
(2007)
Appl. Environ. Microbiol
, vol.73
, pp. 5261-5267
-
-
Wang, Q.1
Garrity, G.M.2
Tiedje, J.M.3
Cole, J.R.4
-
42
-
-
84867389652
-
Distance-based multivariate analyses confound location and dispersion effects
-
Warton, D. I., Wright, S. T., and Wang, Y. (2012). Distance-based multivariate analyses confound location and dispersion effects. Methods Ecol. Evol. 3, 89-101. doi: 10.1111/j.2041-210X.2011.00127.x
-
(2012)
Methods Ecol. Evol
, vol.3
, pp. 89-101
-
-
Warton, D.I.1
Wright, S.T.2
Wang, Y.3
-
43
-
-
84862141704
-
Human gut microbiome viewed across age and geography
-
Yatsunenko, T., Rey, F. E., Manary, M. J., Trehan, I., Dominguez-Bello, M. G., Contreras, M., et al. (2012). Human gut microbiome viewed across age and geography. Nature 486, 222-227. doi: 10.1038/nature11053
-
(2012)
Nature
, vol.486
, pp. 222-227
-
-
Yatsunenko, T.1
Rey, F.E.2
Manary, M.J.3
Trehan, I.4
Dominguez-Bello, M.G.5
Contreras, M.6
|