-
1
-
-
33751059692
-
The marine viromes of four oceanic regions
-
Angly FE, Felts B, Breitbart M, Salamon P, Edwards RA, Carlson C et al. (2006). The marine viromes of four oceanic regions. PLoS Biol 4: 2121-2131.
-
(2006)
PLoS Biol
, vol.4
, pp. 2121-2131
-
-
Angly, F.E.1
Felts, B.2
Breitbart, M.3
Salamon, P.4
Edwards, R.A.5
Carlson, C.6
-
2
-
-
0036598511
-
Evolution of viral structure
-
Bamford DH. (2002). Evolution of viral structure. Theor Popul Biol 61: 461-470.
-
(2002)
Theor Popul Biol
, vol.61
, pp. 461-470
-
-
Bamford, D.H.1
-
4
-
-
20344382957
-
Here a virus, there a virus, everywhere the same virus?
-
Breitbart M, Rohwer F. (2005). Here a virus, there a virus, everywhere the same virus? Trends Microbiol 13: 278-284.
-
(2005)
Trends Microbiol
, vol.13
, pp. 278-284
-
-
Breitbart, M.1
Rohwer, F.2
-
5
-
-
0037195156
-
Genomic analysis of uncultured marine viral communities
-
Breitbart M, Salamon P, Andresen B, Mahaffy JM, Segall AM, Mead D et al. (2002). Genomic analysis of uncultured marine viral communities. Proc Natl Acad Sci USA 99: 14250-14255.
-
(2002)
Proc Natl Acad Sci USA
, vol.99
, pp. 14250-14255
-
-
Breitbart, M.1
Salamon, P.2
Andresen, B.3
Mahaffy, J.M.4
Segall, A.M.5
Mead, D.6
-
6
-
-
0034830935
-
Rapid amplification of plasmid and phage DNA using phi29 DNA polymerase and multiply-primed rolling circle amplification
-
Dean F, Nelson J, Giesler T, Lasken R. (2001). Rapid amplification of plasmid and phage DNA using phi29 DNA polymerase and multiply-primed rolling circle amplification. Genome Res 11: 1095-1099.
-
(2001)
Genome Res
, vol.11
, pp. 1095-1099
-
-
Dean, F.1
Nelson, J.2
Giesler, T.3
Lasken, R.4
-
7
-
-
41149159700
-
Biodiversity and biogeography of phages in modern stromatolites and thrombolites
-
Desnues C, Rodriguez-Brito B, Rayhawk S, Kelley S, Tran T, Haynes M et al. (2008). Biodiversity and biogeography of phages in modern stromatolites and thrombolites. Nature 452: 340-343.
-
(2008)
Nature
, vol.452
, pp. 340-343
-
-
Desnues, C.1
Rodriguez-Brito, B.2
Rayhawk, S.3
Kelley, S.4
Tran, T.5
Haynes, M.6
-
8
-
-
84859814245
-
A novel virus genome discovered in an extreme environment suggests recombination between unrelated groups of RNA and DNA viruses
-
Diemer GS, Stedman KM. (2012). A novel virus genome discovered in an extreme environment suggests recombination between unrelated groups of RNA and DNA viruses. Biol Direct 7: 13.
-
(2012)
Biol Direct
, vol.7
, pp. 13
-
-
Diemer, G.S.1
Stedman, K.M.2
-
9
-
-
37849014296
-
Phylogenetic evidence for rapid rates of molecular evolution in the single-stranded DNA begomovirus tomato yellow leaf curl virus
-
Duffy S, Holmes EC. (2008). Phylogenetic evidence for rapid rates of molecular evolution in the single-stranded DNA begomovirus tomato yellow leaf curl virus. J Virol 82: 957-965.
-
(2008)
J Virol
, vol.82
, pp. 957-965
-
-
Duffy, S.1
Holmes, E.C.2
-
10
-
-
40849097775
-
Rates of evolutionary change in viruses: Patterns and determinants
-
Duffy S, Shackelton LA, Holmes EC. (2008). Rates of evolutionary change in viruses: patterns and determinants. Nat Rev Genet 9: 267-276.
-
(2008)
Nat Rev Genet
, vol.9
, pp. 267-276
-
-
Duffy, S.1
Shackelton, L.A.2
Holmes, E.C.3
-
11
-
-
3042666256
-
MUSCLE: Multiple sequence alignment with high accuracy and high throughput
-
Edgar RC. (2004). MUSCLE: multiple sequence alignment with high accuracy and high throughput. Nucleic Acids Res 32: 1792-1797.
-
(2004)
Nucleic Acids Res
, vol.32
, pp. 1792-1797
-
-
Edgar, R.C.1
-
12
-
-
70049088650
-
Draft genome sequencing of Giardia intestinalis assemblage B isolate GS: Is human giardiasis caused by two different species?
-
Franzén O, Jerlström-Hultqvist J, Castro E, Sherwood E, Ankarklev J, Reiner DS et al. (2009). Draft genome sequencing of Giardia intestinalis assemblage B isolate GS: is human giardiasis caused by two different species? PLoS Pathog 5: e1000560.
-
(2009)
PLoS Pathog
, vol.5
-
-
Franzén, O.1
Jerlström-Hultqvist, J.2
Castro, E.3
Sherwood, E.4
Ankarklev, J.5
Reiner, D.S.6
-
13
-
-
33646872444
-
Two families of Rep-like genes that probably originated by interspecies recombination are represented in viral, plasmid, bacterial, and parasitic protozoan genomes
-
Gibbs MJ, Smeianov VV, Steele JL, Upcroft P, Efimov Ba. (2006). Two families of Rep-like genes that probably originated by interspecies recombination are represented in viral, plasmid, bacterial, and parasitic protozoan genomes. Mol Biol Evol 23: 1097-1100.
-
(2006)
Mol Biol Evol
, vol.23
, pp. 1097-1100
-
-
Gibbs, M.J.1
Smeianov, V.V.2
Steele, J.L.3
Upcroft, P.4
Efimov, Ba.5
-
14
-
-
0035054380
-
Automated finishing with autofinish
-
Gordon D, Desmarais C, Green P. (2001). Automated finishing with autofinish. Genome Res 11: 614-625.
-
(2001)
Genome Res
, vol.11
, pp. 614-625
-
-
Gordon, D.1
Desmarais, C.2
Green, P.3
-
15
-
-
1642452600
-
Nanoviruses: Genome organisation and protein function
-
Gronenborn B. (2004). Nanoviruses: genome organisation and protein function. Vet Microbiol 98: 103-109.
-
(2004)
Vet Microbiol
, vol.98
, pp. 103-109
-
-
Gronenborn, B.1
-
16
-
-
77950806408
-
New algorithms and methods to estimate maximum-likelihood phylogenies: Assessing the performance of PhyML 3.0
-
Guindon S, Dufayard J-F, Lefort V, Anisimova M, Hordijk W, Gascuel O. (2010). New algorithms and methods to estimate maximum-likelihood phylogenies: assessing the performance of PhyML 3.0. Syst Biol 59: 307-321.
-
(2010)
Syst Biol
, vol.59
, pp. 307-321
-
-
Guindon, S.1
Dufayard, J.-F.2
Lefort, V.3
Anisimova, M.4
Hordijk, W.5
Gascuel, O.6
-
17
-
-
0026748738
-
Conserved sequence motifs in the initiator proteins for rolling circle DNA replication encoded by diverse replicons from eubac-teria, eucaryotes and archaebacteria
-
Ilyina TV, Koonin EV. (1992). Conserved sequence motifs in the initiator proteins for rolling circle DNA replication encoded by diverse replicons from eubac-teria, eucaryotes and archaebacteria. Nucleic Acids Res 20: 3279-3285.
-
(1992)
Nucleic Acids Res
, vol.20
, pp. 3279-3285
-
-
Ilyina, T.V.1
Koonin, E.V.2
-
18
-
-
0037100671
-
MAFFT: A novel method for rapid multiple sequence alignment based on fast Fourier transform
-
Katoh K, Misawa K, Kuma K, Miyata T. (2002). MAFFT: a novel method for rapid multiple sequence alignment based on fast Fourier transform. Nucleic Acids Res 30: 3059-3066.
-
(2002)
Nucleic Acids Res
, vol.30
, pp. 3059-3066
-
-
Katoh, K.1
Misawa, K.2
Kuma, K.3
Miyata, T.4
-
19
-
-
81555221014
-
-
Elsevier Academic Press: San Diego, CAa, USA
-
King A, Adams M, Carstens E, Lefkowitz E. (2012). Virus Taxonomy: Ninth Report of the International Committee on Taxonomy of Viruses, 2nd edn. Elsevier Academic Press: San Diego, CAa, USA.
-
(2012)
Virus Taxonomy: Ninth Report of the International Committee on Taxonomy of Viruses, 2nd Edn
-
-
King, A.1
Adams, M.2
Carstens, E.3
Lefkowitz, E.4
-
20
-
-
66249128247
-
Phylogenetic analysis indicates evolutionary diversity and environmental segregation of marine podovirus DNA polymerase gene sequences
-
Labonté JM, Reid KE, Suttle CA. (2009). Phylogenetic analysis indicates evolutionary diversity and environmental segregation of marine podovirus DNA polymerase gene sequences. Appl Environ Microb 75: 3634-3640.
-
(2009)
Appl Environ Microb
, vol.75
, pp. 3634-3640
-
-
Labonté, J.M.1
Reid, K.E.2
Suttle, C.A.3
-
21
-
-
75449118921
-
Multiple diverse circoviruses infect farm animals and are commonly found in human and chimpanzee feces
-
Li L, Kapoor A, Slikas B, Bamidele OS, Wang C, Shaukat S et al. (2010). Multiple diverse circoviruses infect farm animals and are commonly found in human and chimpanzee feces. J Virol 84: 1674-1682.
-
(2010)
J Virol
, vol.84
, pp. 1674-1682
-
-
Li, L.1
Kapoor, A.2
Slikas, B.3
Bamidele, O.S.4
Wang, C.5
Shaukat, S.6
-
22
-
-
0031831323
-
Mutation detection and single-molecule counting using isothermal rolling-circle amplification
-
Lizardi PM, Huang X, Zhu Z, Bray-Ward P, Thomas DC, Ward DC. (1998). Mutation detection and single-molecule counting using isothermal rolling-circle amplification. Nat Genet 19: 225-232.
-
(1998)
Nat Genet
, vol.19
, pp. 225-232
-
-
Lizardi, P.M.1
Huang, X.2
Zhu, Z.3
Bray-Ward, P.4
Thomas, D.C.5
Ward, D.C.6
-
23
-
-
70449376998
-
High diversity of the viral community from an Antarctic lake
-
López-Bueno A, Tamames J, Velázquez D, Moya A, Quesada A, Alcamí A. (2009). High diversity of the viral community from an Antarctic lake. Science 326: 858-861.
-
(2009)
Science
, vol.326
, pp. 858-861
-
-
López-Bueno, A.1
Tamames, J.2
Velázquez, D.3
Moya, A.4
Quesada, A.5
Alcamí, A.6
-
24
-
-
0031964179
-
Identification of a protein essential for replication of porcine circovirus
-
Mankertz A, Mankertz J, Wolf K, Buhk HJ. (1998). Identification of a protein essential for replication of porcine circovirus. J Gen Virol 79: 381-384.
-
(1998)
J Gen Virol
, vol.79
, pp. 381-384
-
-
Mankertz, A.1
Mankertz, J.2
Wolf, K.3
Buhk, H.J.4
-
25
-
-
79956322041
-
Metagenomic identification of a novel anellovirus in Pacific harbor seal (Phoca vitulina richardsii) lung samples and its detection in samples from multiple years
-
Ng TFF, Wheeler E, Greig D, Waltzek TB, Gulland F, Breitbart M. (2011). Metagenomic identification of a novel anellovirus in Pacific harbor seal (Phoca vitulina richardsii) lung samples and its detection in samples from multiple years. J Gen Virol 92: 1318-1323.
-
(2011)
J Gen Virol
, vol.92
, pp. 1318-1323
-
-
Tff, N.1
Wheeler, E.2
Greig, D.3
Waltzek, T.B.4
Gulland, F.5
Breitbart, M.6
-
26
-
-
33748591589
-
Assessment of whole genome amplification-induced bias through high-throughput, massively parallel whole genome sequencing
-
Pinard R, De Winter A, Sarkis GJ, Gerstein MB, Tartaro KR, Plant RN et al. (2006). Assessment of whole genome amplification-induced bias through high-throughput, massively parallel whole genome sequencing. BMC Genomics 7: 216.
-
(2006)
BMC Genomics
, vol.7
, pp. 216
-
-
Pinard, R.1
De Winter, A.2
Sarkis, G.J.3
Gerstein, M.B.4
Tartaro, K.R.5
Plant, R.N.6
-
27
-
-
32044436032
-
Evidence of host-virus co-evolution in tetranucleotide usage patterns of bacteriophages and eukaryotic viruses
-
Pride DT, Wassenaar TM, Ghose C, Blaser MJ. (2006). Evidence of host-virus co-evolution in tetranucleotide usage patterns of bacteriophages and eukaryotic viruses. BMC Genomics 7: 8.
-
(2006)
BMC Genomics
, vol.7
, pp. 8
-
-
Pride, D.T.1
Wassenaar, T.M.2
Ghose, C.3
Blaser, M.J.4
-
28
-
-
70149108769
-
Whole genome amplification and de novo assembly of single bacterial cells
-
Rodrigue S, Malmstrom RR, Berlin AM, Birren BW, Henn MR, Chisholm SW. (2009). Whole genome amplification and de novo assembly of single bacterial cells. PloS One 4: e6864.
-
(2009)
PloS One
, vol.4
-
-
Rodrigue, S.1
Malmstrom, R.R.2
Berlin, A.M.3
Birren, B.W.4
Henn, M.R.5
Chisholm, S.W.6
-
29
-
-
80053370586
-
Exploring the viral world through metagenomics
-
Rosario K, Breitbart M. (2011). Exploring the viral world through metagenomics. Curr Opin Virol 1: 289-297.
-
(2011)
Curr Opin Virol
, vol.1
, pp. 289-297
-
-
Rosario, K.1
Breitbart, M.2
-
30
-
-
84867142649
-
A field guide to eukaryotic circular single-stranded DNA viruses: Insights gained from metagenomics
-
Rosario K, Duffy S, Breitbart M. (2012). A field guide to eukaryotic circular single-stranded DNA viruses: insights gained from metagenomics. Arch Virol 157: 1851-1871.
-
(2012)
Arch Virol
, vol.157
, pp. 1851-1871
-
-
Rosario, K.1
Duffy, S.2
Breitbart, M.3
-
31
-
-
70350491059
-
Diverse circovirus-like genome architectures revealed by environmental metagenomics
-
Rosario K, Duffy S, Breitbart M. (2009). Diverse circovirus-like genome architectures revealed by environmental metagenomics. J Gen Virol 90: 2418-2424.
-
(2009)
J Gen Virol
, vol.90
, pp. 2418-2424
-
-
Rosario, K.1
Duffy, S.2
Breitbart, M.3
-
32
-
-
33947215475
-
CAMERA: A community resource for metage-nomics
-
Seshadri R, Kravitz SA, Smarr L, Gilna P, Frazier M. (2007). CAMERA: a community resource for metage-nomics. PLoS Biol 5: e75.
-
(2007)
PLoS Biol
, vol.5
-
-
Seshadri, R.1
Kravitz, S.A.2
Smarr, L.3
Gilna, P.4
Frazier, M.5
-
33
-
-
0242490780
-
Cytoscape: A software environment for integrated models of biomolecular interaction networks
-
Shannon P, Markiel A, Ozier O, Baliga NS, Wang JT, Ramage D et al. (2003). Cytoscape: a software environment for integrated models of biomolecular interaction networks. Genome Res 13: 2498-2504.
-
(2003)
Genome Res
, vol.13
, pp. 2498-2504
-
-
Shannon, P.1
Markiel, A.2
Ozier, O.3
Baliga, N.S.4
Wang, J.T.5
Ramage, D.6
-
34
-
-
12244252269
-
Nearly identical bacteriophage structural gene sequences are widely distributed in both marine and freshwater environments
-
Short CM, Suttle CA. (2005). Nearly identical bacteriophage structural gene sequences are widely distributed in both marine and freshwater environments. Appl Environ Microb 71: 480-486.
-
(2005)
Appl Environ Microb
, vol.71
, pp. 480-486
-
-
Short, C.M.1
Suttle, C.A.2
-
35
-
-
0036197501
-
Sequence analysis of marine virus communities reveals that groups of related algal viruses are widely distributed in nature
-
Short SM, Suttle CA. (2002). Sequence analysis of marine virus communities reveals that groups of related algal viruses are widely distributed in nature. Appl Environ Microb 68: 1290-1296.
-
(2002)
Appl Environ Microb
, vol.68
, pp. 1290-1296
-
-
Short, S.M.1
Suttle, C.A.2
-
36
-
-
62449130191
-
Alignment-free genome comparison with feature frequency profiles (FFP) and optimal resolutions
-
Sims GE, Jun S-R, Wu GA, Kim S-H. (2009). Alignment-free genome comparison with feature frequency profiles (FFP) and optimal resolutions. Proc Natl Acad Sci USA 106: 2677-2682.
-
(2009)
Proc Natl Acad Sci USA
, vol.106
, pp. 2677-2682
-
-
Sims, G.E.1
Jun, S.-R.2
Wu, G.A.3
Kim, S.-H.4
-
37
-
-
23144452044
-
The HHpred interactive server for protein homology detection and structure prediction
-
Söding J, Biegert A, Lupas AN. (2005). The HHpred interactive server for protein homology detection and structure prediction. Nucleic Acids Res 33: W244-W248.
-
(2005)
Nucleic Acids Res
, vol.33
-
-
Söding, J.1
Biegert, A.2
Lupas, A.N.3
-
38
-
-
25144506135
-
Viruses in the sea
-
Suttle CA. (2005). Viruses in the sea. Nature 437: 356-361.
-
(2005)
Nature
, vol.437
, pp. 356-361
-
-
Suttle, C.A.1
-
39
-
-
0025919217
-
Use of ultrafiltration to isolate viruses from seawater which are pathogens of marine phytoplankton
-
Suttle CA, Chan AM, Cottrell MT. (1991). Use of ultrafiltration to isolate viruses from seawater which are pathogens of marine phytoplankton. Appl Environ Microb 57: 721-726.
-
(1991)
Appl Environ Microb
, vol.57
, pp. 721-726
-
-
Suttle, C.A.1
Chan, A.M.2
Cottrell, M.T.3
-
41
-
-
57449102600
-
Metagenomic analysis indicates that stressors induce production of herpeslike viruses in the coral Porites compressa
-
Thurber RLV, Barott KL, Hall D, Liu H, Rodriguez-Mueller B, Desnues C et al. (2008). Metagenomic analysis indicates that stressors induce production of herpeslike viruses in the coral Porites compressa. Proc Natl Acad Sci USA 105: 18413-18418.
-
(2008)
Proc Natl Acad Sci USA
, vol.105
, pp. 18413-18418
-
-
Rlv, T.1
Barott, K.L.2
Hall, D.3
Liu, H.4
Rodriguez-Mueller, B.5
Desnues, C.6
-
42
-
-
79955068424
-
Diversity and distribution of single-stranded DNA phages in the North Atlantic Ocean
-
Tucker KP, Parsons R, Symonds EM, Breitbart M. (2011). Diversity and distribution of single-stranded DNA phages in the North Atlantic Ocean. ISME J 5: 822-830.
-
(2011)
ISME J
, vol.5
, pp. 822-830
-
-
Tucker, K.P.1
Parsons, R.2
Symonds, E.M.3
Breitbart, M.4
|