-
1
-
-
76349125984
-
Global ecological patterns in uncultured Archaea
-
Auguet JC, Barberán A, Casamayor EO. (2010). Global ecological patterns in uncultured Archaea. ISME J 4: 182-190.
-
(2010)
ISME J
, vol.4
, pp. 182-190
-
-
Auguet, J.C.1
Barberán, A.2
Casamayor, E.O.3
-
2
-
-
77954288795
-
Global phylogenetic community structure and beta-diversity patterns of surface bacterioplankton metacommunities
-
Barberán A, Casamayor EO. (2010). Global phylogenetic community structure and beta-diversity patterns of surface bacterioplankton metacommunities. Aquat Microb Ecol 59: 1-10.
-
(2010)
Aquat Microb Ecol
, vol.59
, pp. 1-10
-
-
Barberán, A.1
Casamayor, E.O.2
-
3
-
-
79951517955
-
Euxinic freshwater hypolimnia promote bacterial endemicity in continental areas
-
Barberán A, Casamayor EO. (2011). Euxinic freshwater hypolimnia promote bacterial endemicity in continental areas. Microb Ecol 61: 465-472.
-
(2011)
Microb Ecol
, vol.61
, pp. 465-472
-
-
Barberán, A.1
Casamayor, E.O.2
-
5
-
-
79955057814
-
Examining the global distribution of dominant archaeal populations in soil
-
Bates ST, Berg-Lyons D, Caporaso JG, Walters WA, Knight R, Fierer N. (2010). Examining the global distribution of dominant archaeal populations in soil. ISME J 5: 908-917.
-
(2010)
ISME J
, vol.5
, pp. 908-917
-
-
Bates, S.T.1
Berg-Lyons, D.2
Caporaso, J.G.3
Walters, W.A.4
Knight, R.5
Fierer, N.6
-
6
-
-
79955980612
-
The under-recognized dominance of Verrucomicrobia in soil bacterial communities
-
Bergmann GT, Bates ST, Eilers KG, Lauber CL, Caporaso JG, Walters WA et al. (2011). The under-recognized dominance of Verrucomicrobia in soil bacterial communities. Soil Biol Biochem 43: 1450-1455.
-
(2011)
Soil Biol Biochem
, vol.43
, pp. 1450-1455
-
-
Bergmann, G.T.1
Bates, S.T.2
Eilers, K.G.3
Lauber, C.L.4
Caporaso, J.G.5
Walters, W.A.6
-
7
-
-
77952243141
-
QIIME allows analysis of high-throughput community sequencing data
-
Caporaso JG, Kuczynski J, Stombaugh J, Bittinger K, Bushman FD, Costello EK et al. (2010). QIIME allows analysis of high-throughput community sequencing data. Nat Methods 7: 335-336.
-
(2010)
Nat Methods
, vol.7
, pp. 335-336
-
-
Caporaso, J.G.1
Kuczynski, J.2
Stombaugh, J.3
Bittinger, K.4
Bushman, F.D.5
Costello, E.K.6
-
8
-
-
77954238817
-
A global network of coexisting microbes from environmental and whole-genome sequence data
-
Chaffron S, Rehrauer H, Pernthaler J, von Mering C. (2010). A global network of coexisting microbes from environmental and whole-genome sequence data. Genome Res 20: 947-959.
-
(2010)
Genome Res
, vol.20
, pp. 947-959
-
-
Chaffron, S.1
Rehrauer, H.2
Pernthaler, J.3
Von Mering, C.4
-
9
-
-
72949091232
-
Bacterial community variation in human body habitats across space and time
-
Costello EK, Lauber CL, Hamady M, Fierer N, Gordon JI, Knight R. (2009). Bacterial community variation in human body habitats across space and time. Science 326: 1694-1697.
-
(2009)
Science
, vol.326
, pp. 1694-1697
-
-
Costello, E.K.1
Lauber, C.L.2
Hamady, M.3
Fierer, N.4
Gordon, J.I.5
Knight, R.6
-
10
-
-
43349094507
-
The igraph software package for complex network research
-
Csárdi G, Nepusz T. (2006). The igraph software package for complex network research. InterJ Complex Syst 1695: 2006.
-
(2006)
InterJ Complex Syst
, vol.1695
, pp. 2006
-
-
Csárdi, G.1
Nepusz, T.2
-
12
-
-
77957244650
-
Search and clustering orders of magnitude faster than BLAST
-
Edgar RC. (2010). Search and clustering orders of magnitude faster than BLAST. Bioinformatics 26: 2460-2461.
-
(2010)
Bioinformatics
, vol.26
, pp. 2460-2461
-
-
Edgar, R.C.1
-
13
-
-
31444447130
-
The diversity and biogeography of soil bacterial communities
-
Fierer N, Jackson RB. (2006). The diversity and biogeography of soil bacterial communities. Proc Natl Acad Sci USA 103: 626.
-
(2006)
Proc Natl Acad Sci USA
, vol.103
, pp. 626
-
-
Fierer, N.1
Jackson, R.B.2
-
14
-
-
69249118591
-
Metagenomic and small-subunit rRNA analyses reveal the genetic diversity of bacteria, archaea, fungi, and viruses in soil
-
DOI 10.1128/AEM.00358-07
-
Fierer N, Breitbart M, Nulton J, Salamon P, Lozupone C, Jones R et al. (2007). Metagenomic and small-subunit rrna analyses reveal the genetic diversity of bacteria, archaea, fungi, and viruses in soil. Appl Environ Microbiol 73: 7059-7066. (Pubitemid 350076828)
-
(2007)
Applied and Environmental Microbiology
, vol.73
, Issue.21
, pp. 7059-7066
-
-
Fierer, N.1
Breitbart, M.2
Nulton, J.3
Salamon, P.4
Lozupone, C.5
Jones, R.6
Robeson, M.7
Edwards, R.A.8
Felts, B.9
Rayhawk, S.10
Knight, R.11
Rohwer, F.12
Jackson, R.B.13
-
15
-
-
56649124715
-
The influence of sex, handedness, and washing on the diversity of hand surface bacteria
-
Fierer N, Hamady M, Lauber CL, Knight R. (2008). The influence of sex, handedness, and washing on the diversity of hand surface bacteria. Proc Natl Acad Sci USA 105: 17994-17999.
-
(2008)
Proc Natl Acad Sci USA
, vol.105
, pp. 17994-17999
-
-
Fierer, N.1
Hamady, M.2
Lauber, C.L.3
Knight, R.4
-
16
-
-
77954241658
-
The large-scale organization of the bacterial network of ecological co-occurrence interactions
-
Freilich S, Kreimer A, Meilijson I, Gophna U, Sharan R, Ruppin E. (2010). The large-scale organization of the bacterial network of ecological co-occurrence interactions. Nucleic Acids Res 38: 3857-3868.
-
(2010)
Nucleic Acids Res
, vol.38
, pp. 3857-3868
-
-
Freilich, S.1
Kreimer, A.2
Meilijson, I.3
Gophna, U.4
Sharan, R.5
Ruppin, E.6
-
17
-
-
54549105879
-
Community structure of marine bacterioplankton: Patterns, networks, and relationships to function
-
Fuhrman JA, Steele JA. (2008). Community structure of marine bacterioplankton: Patterns, networks, and relationships to function. Aquati Microb Ecol 53: 69-81.
-
(2008)
Aquati Microb Ecol
, vol.53
, pp. 69-81
-
-
Fuhrman, J.A.1
Steele, J.A.2
-
18
-
-
67949086798
-
Unique archaeal assemblages in the arctic ocean unveiled by massively parallel tag sequencing
-
Galand PE, Casamayor EO, Kirchman DL, Potvin M, Lovejoy C. (2009). Unique archaeal assemblages in the arctic ocean unveiled by massively parallel tag sequencing. ISME J 3: 860-869.
-
(2009)
ISME J
, vol.3
, pp. 860-869
-
-
Galand, P.E.1
Casamayor, E.O.2
Kirchman, D.L.3
Potvin, M.4
Lovejoy, C.5
-
19
-
-
14644396645
-
Functional cartography of complex metabolic networks
-
DOI 10.1038/nature03288
-
Guimera R, Amaral LAN. (2005). Functional cartography of complex metabolic networks. Nature 433: 895-900. (Pubitemid 40314902)
-
(2005)
Nature
, vol.433
, Issue.7028
, pp. 895-900
-
-
Guimera, R.1
Amaral, L.A.N.2
-
20
-
-
0033845740
-
Abundance and distribution of desert annuals: Are spatial and temporal patterns related?
-
DOI 10.1046/j.1365-2745.2000.00466.x
-
Guo Q, Brown JH, Valone TJ. (2000). Abundance and distribution of desert annuals: Are spatial and temporal patterns related? J Ecol 88: 551-560. (Pubitemid 30647570)
-
(2000)
Journal of Ecology
, vol.88
, Issue.4
, pp. 551-560
-
-
Guo, Q.1
Brown, J.H.2
Valone, T.J.3
-
21
-
-
0028791540
-
Evidence that particulate methane monooxygenase and ammonia monooxygenase may be evolutionarily related
-
Holmes AJ, Costello A, Lindstrom ME, Murrell JC. (1995). Evidence that particulate methane monooxygenase and ammonia monooxygenase may be evolutionarily related. FEMS Microbio Lett 132: 203-208.
-
(1995)
FEMS Microbio Lett
, vol.132
, pp. 203-208
-
-
Holmes, A.J.1
Costello, A.2
Lindstrom, M.E.3
Murrell, J.C.4
-
22
-
-
34547626761
-
A comparison of taxon co-occurrence patterns for macro- and microorganisms
-
DOI 10.1890/06-0286
-
Horner-Devine MC, Silver JM, Leibold MA, Bohannan BJ, Colwell RK, Fuhrman JA et al. (2007). A comparison of taxon co-occurrence patterns for macro-and microorganisms. Ecology 88: 1345-1353. (Pubitemid 351345210)
-
(2007)
Ecology
, vol.88
, Issue.6
, pp. 1345-1353
-
-
Horner-Devine, M.C.1
Silver, J.M.2
Leibold, M.A.3
Bohannan, B.J.M.4
Colwell, R.K.5
Fuhrman, J.A.6
Green, J.L.7
Kuske, C.R.8
Martiny, J.B.H.9
Muyzer, G.10
Ovreas, L.11
Reysenbach, A.-L.12
Smith, V.H.13
-
23
-
-
0035487318
-
Counting the Uncountable: Statistical Approaches to Estimating Microbial Diversity
-
DOI 10.1128/AEM.67.10.4399-4406.2001
-
Hughes JB, Hellmann JJ, Ricketts TH, Bohannan BJ. (2001). Counting the uncountable: Statistical approaches to estimating microbial diversity. Appl Environ Microbiol 67: 4399-4406. (Pubitemid 33646064)
-
(2001)
Applied and Environmental Microbiology
, vol.67
, Issue.10
, pp. 4399-4406
-
-
Hughes, J.B.1
Hellmann, J.J.2
Ricketts, T.H.3
Bohannan, B.J.M.4
-
24
-
-
33644952722
-
Identifying the dominant soil bacterial taxa in libraries of 16S rRNA and 16S rRNA genes
-
Janssen PH. (2006). Identifying the dominant soil bacterial taxa in libraries of 16S rRNA and 16S rRNA genes. Appl Environ Microbiol 72: 1719-1728.
-
(2006)
Appl Environ Microbiol
, vol.72
, pp. 1719-1728
-
-
Janssen, P.H.1
-
25
-
-
63349105158
-
A comprehensive survey of soil acidobacterial diversity using pyrosequencing and clone library analyses
-
Jones RT, Robeson MS, Lauber CL, Hamady M, Knight R, Fierer N. (2009). A comprehensive survey of soil acidobacterial diversity using pyrosequencing and clone library analyses. ISME J 3: 442-453.
-
(2009)
ISME J
, vol.3
, pp. 442-453
-
-
Jones, R.T.1
Robeson, M.S.2
Lauber, C.L.3
Hamady, M.4
Knight, R.5
Fierer, N.6
-
27
-
-
35748954014
-
Prokaryotic taxonomy and phylogeny in the genomic era: advancements and challenges ahead
-
DOI 10.1016/j.mib.2007.08.006, PII S1369527407001208, Antimicrobials/Genomics
-
Konstantinidis KT, Tiedje JM. (2007). Prokaryotic taxonomy and phylogeny in the genomic era: Advancements and challenges ahead. Curr Opin Microbiol 10: 504-509. (Pubitemid 350052687)
-
(2007)
Current Opinion in Microbiology
, vol.10
, Issue.5
, pp. 504-509
-
-
Konstantinidis, K.T.1
Tiedje, J.M.2
-
28
-
-
0344875024
-
Compartments revealed in food-web structure
-
DOI 10.1038/nature02115
-
Krause AE, Frank KA, Mason DM, Ulanowicz RE, Taylor WW. (2003). Compartments revealed in food-web structure. Nature 426: 282-285. (Pubitemid 37463145)
-
(2003)
Nature
, vol.426
, Issue.6964
, pp. 282-285
-
-
Krause, A.E.1
Frank, K.A.2
Mason, D.M.3
Ulanowicz, R.E.4
Taylor, W.W.5
-
29
-
-
67651247607
-
Pyrosequencing-based assessment of soil ph as a predictor of soil bacterial community structure at the continental scale
-
Lauber CL, Hamady M, Knight R, Fierer N. (2009). Pyrosequencing-based assessment of soil ph as a predictor of soil bacterial community structure at the continental scale. Appl Environ Microbiol 75: 5111-5120.
-
(2009)
Appl Environ Microbiol
, vol.75
, pp. 5111-5120
-
-
Lauber, C.L.1
Hamady, M.2
Knight, R.3
Fierer, N.4
-
30
-
-
33747479446
-
Archaea predominate among ammonia-oxidizing prokaryotes in soils
-
DOI 10.1038/nature04983, PII NATURE04983
-
Leininger S, Urich T, Schloter M, Schwark L, Qi J, Nicol GW et al. (2006). Archaea predominate among ammonia-oxidizing prokaryotes in soils. Nature 442: 806-809. (Pubitemid 44258909)
-
(2006)
Nature
, vol.442
, Issue.7104
, pp. 806-809
-
-
Leininger, S.1
Urich, T.2
Schloter, M.3
Schwark, L.4
Qi, J.5
Nicol, G.W.6
Prosser, J.I.7
Schuster, S.C.8
Schleper, C.9
-
32
-
-
0037452044
-
Explaining the excess of rare species in natural species abundance distributions
-
DOI 10.1038/nature01547
-
Magurran AE, Henderson PA. (2003). Explaining the excess of rare species in natural species abundance distributions. Nature 422: 714-716. (Pubitemid 36514108)
-
(2003)
Nature
, vol.422
, Issue.6933
, pp. 714-716
-
-
Magurran, A.E.1
Henderson, P.A.2
-
33
-
-
0035487280
-
Numerical Analysis of Grassland Bacterial Community Structure under Different Land Management Regimens by Using 16S Ribosomal DNA Sequence Data and Denaturing Gradient Gel Electrophoresis Banding Patterns
-
DOI 10.1128/AEM.67.10.4554-4559.2001
-
McCaig AE, Glover LA, Prosser JI. (2001). Numerical analysis of grassland bacterial community structure under different land management regimens by using 16S ribosomal DNA sequence data and denaturing gradient gel electrophoresis banding patterns. Appl Environ Microbiol 67: 4554-4559. (Pubitemid 33646084)
-
(2001)
Applied and Environmental Microbiology
, vol.67
, Issue.10
, pp. 4554-4559
-
-
McCaig, A.E.1
Glover, L.A.2
Prosser, J.I.3
-
34
-
-
0035511565
-
Race, school integration, and friendship segregation in America
-
Moody J. (2001). Race, school integration, and friendship segregation in America. Am J Sociol 107: 679-716.
-
(2001)
Am J Sociol
, vol.107
, pp. 679-716
-
-
Moody, J.1
-
35
-
-
0038718854
-
The structure and function of complex networks
-
SIAM
-
Newman MEJ. (2003). The structure and function of complex networks. SIAM Rev 45: 167-256.
-
(2003)
Rev
, vol.45
, pp. 167-256
-
-
Newman, M.E.J.1
-
36
-
-
33745012299
-
Modularity and community structure in networks
-
Newman MEJ. (2006). Modularity and community structure in networks. Proc Natl Acad Sci USA 103: 8577.
-
(2006)
Proc Natl Acad Sci USA
, vol.103
, pp. 8577
-
-
Newman, M.E.J.1
-
37
-
-
68649113028
-
Vegan: Community ecology package
-
Oksanen J, Kindt R, Legendre P, O'Hara B, Simpson GL, Solymos P et al. (2007). Vegan: Community ecology package. R package version 1: 8.
-
(2007)
R package version
, vol.1
, pp. 8
-
-
Oksanen, J.1
Kindt, R.2
Legendre, P.3
O'Hara, B.4
Simpson, G.L.5
Solymos, P.6
-
38
-
-
0030982247
-
A molecular view of microbial diversity and the biosphere
-
DOI 10.1126/science.276.5313.734
-
Pace NR. (1997). A molecular view of microbial diversity and the biosphere. Science 276: 734-740. (Pubitemid 27199842)
-
(1997)
Science
, vol.276
, Issue.5313
, pp. 734-740
-
-
Pace, N.R.1
-
39
-
-
68149145833
-
Contrasts between habitat generalists and specialists: An empirical extension to the basic metacommunity framework
-
Pandit SN, Kolasa J, Cottenie K. (2009). Contrasts between habitat generalists and specialists: An empirical extension to the basic metacommunity framework. Ecology 90: 2253-2262.
-
(2009)
Ecology
, vol.90
, pp. 2253-2262
-
-
Pandit, S.N.1
Kolasa, J.2
Cottenie, K.3
-
40
-
-
0035794256
-
Epidemic spreading in scale-free networks
-
DOI 10.1103/PhysRevLett.86.3200
-
Pastor-Satorras R, Vespignani A. (2001). Epidemic spreading in scale-free networks. Phys Rev Lett 86: 3200-3203. (Pubitemid 32317894)
-
(2001)
Physical Review Letters
, vol.86
, Issue.14
, pp. 3200-3203
-
-
Pastor-Satorras, R.1
Vespignani, A.2
-
41
-
-
77953619002
-
The ecological coherence of high bacterial taxonomic ranks
-
Philippot L, Andersson SG, Battin TJ, Prosser JI, Schimel JP, Whitman WB et al. (2010). The ecological coherence of high bacterial taxonomic ranks. Nat Rev Microbiol 8: 523-529.
-
(2010)
Nat Rev Microbiol
, vol.8
, pp. 523-529
-
-
Philippot, L.1
Andersson, S.G.2
Battin, T.J.3
Prosser, J.I.4
Schimel, J.P.5
Whitman, W.B.6
-
42
-
-
34247221045
-
The role of ecological theory in microbial ecology
-
DOI 10.1038/nrmicro1643, PII NRMICRO1643
-
Prosser JI, Bohannan BJ, Curtis TP, Ellis RJ, Firestone MK, Freckleton RP et al. (2007). The role of ecological theory in microbial ecology. Nat Rev Microbiol 5: 384-392. (Pubitemid 46605492)
-
(2007)
Nature Reviews Microbiology
, vol.5
, Issue.5
, pp. 384-392
-
-
Prosser, J.I.1
Bohannan, B.J.M.2
Curtis, T.P.3
Ellis, R.J.4
Firestone, M.K.5
Freckleton, R.P.6
Green, J.L.7
Green, L.E.8
Killham, K.9
Lennon, J.J.10
Osborn, A.M.11
Solan, M.12
Van Der Gast, C.J.13
Young, J.P.W.14
-
44
-
-
34547800097
-
Pyrosequencing enumerates and contrasts soil microbial diversity
-
DOI 10.1038/ismej.2007.53, PII ISMEJ200753
-
Roesch LFW, Fulthorpe RR, Riva A, Casella G, Hadwin AKM, Kent AD et al. (2007). Pyrosequencing enumerates and contrasts soil microbial diversity. ISME J 1: 283-290. (Pubitemid 47227850)
-
(2007)
ISME Journal
, vol.1
, Issue.4
, pp. 283-290
-
-
Roesch, L.F.W.1
Fulthorpe, R.R.2
Riva, A.3
Casella, G.4
Hadwin, A.K.M.5
Kent, A.D.6
Daroub, S.H.7
Camargo, F.A.O.8
Farmerie, W.G.9
Triplett, E.W.10
-
45
-
-
33749824905
-
Local similarity analysis reveals unique associations among marine bacterioplankton species and environmental factors
-
Ruan Q, Dutta D, Schwalbach MS, Steele JA, Fuhrman JA, Sun F. (2006). Local similarity analysis reveals unique associations among marine bacterioplankton species and environmental factors. Bioinformatics 22: 2532.
-
(2006)
Bioinformatics
, vol.22
, pp. 2532
-
-
Ruan, Q.1
Dutta, D.2
Schwalbach, M.S.3
Steele, J.A.4
Fuhrman, J.A.5
Sun, F.6
-
46
-
-
33747073504
-
Microbial diversity in the deep sea and the underexplored "rare biosphere"
-
DOI 10.1073/pnas.0605127103
-
Sogin ML, Morrison HG, Huber JA, Mark Welch D, Huse SM, Neal PR et al. (2006). Microbial diversity in the deep sea and the underexplored 'rare biosphere'. Proc Natl Acad Sci USA 103: 12115-12120. (Pubitemid 44215820)
-
(2006)
Proceedings of the National Academy of Sciences of the United States of America
, vol.103
, Issue.32
, pp. 12115-12120
-
-
Sogin, M.L.1
Morrison, H.G.2
Huber, J.A.3
Welch, D.M.4
Huse, S.M.5
Neal, P.R.6
Arrieta, J.M.7
Herndl, G.J.8
-
47
-
-
0025622072
-
The checkerboard score and species distributions
-
Stone L, Roberts A. (1990). The checkerboard score and species distributions. Oecologia 85: 74-79.
-
(1990)
Oecologia
, vol.85
, pp. 74-79
-
-
Stone, L.1
Roberts, A.2
-
49
-
-
79955064481
-
Partitioning core and satellite taxa from within cystic fibrosis lung bacterial communities
-
van der Gast C, Walker AW, Stressmann FA, Rogers GB, Scott P, Daniels TW et al. (2011). Partitioning core and satellite taxa from within cystic fibrosis lung bacterial communities. ISME J 5: 780-791.
-
(2011)
ISME J
, vol.5
, pp. 780-791
-
-
Van Der Gast, C.1
Walker, A.W.2
Stressmann, F.A.3
Rogers, G.B.4
Scott, P.5
Daniels, T.W.6
-
50
-
-
34548293679
-
Naive Bayesian classifier for rapid assignment of rRNA sequences into the new bacterial taxonomy
-
Wang Q, Garrity GM, Tiedje JM, Cole JR. (2007). Naive Bayesian classifier for rapid assignment of rRNA sequences into the new bacterial taxonomy. Appl Environ Microbiol 73: 5261.
-
(2007)
Appl Environ Microbiol
, vol.73
, pp. 5261
-
-
Wang, Q.1
Garrity, G.M.2
Tiedje, J.M.3
Cole, J.R.4
-
51
-
-
60749084669
-
Diversity rankings among bacterial lineages in soil
-
Youssef NH, Elshahed MS. (2009). Diversity rankings among bacterial lineages in soil. ISME J 3: 305-313.
-
(2009)
ISME J
, vol.3
, pp. 305-313
-
-
Youssef, N.H.1
Elshahed, M.S.2
|