Bellerophon: a program to detect chimeric sequences in multiple sequence alignments

被引：1328

作者：

Huber, T ^{[1
]}

Faulkner, G

Hugenholtz, P

机构：

[1] Univ Queensland, ComBinE Grp, Adv Comp Modelling Ctr, Brisbane, Qld 4072, Australia

[2] Univ Calif Berkeley, Dept Environm Sci Policy & Management, Berkeley, CA 94720 USA

来源：

BIOINFORMATICS | 2004年 / 20卷 / 14期

关键词：

D O I：

10.1093/bioinformatics/bth226

中图分类号：

Q5 [生物化学];

学科分类号：

071010 ; 081704 ;

摘要：

Bellerophon is a program for detecting chimeric sequences in multiple sequence datasets by an adaption of partial treeing analysis. Bellerophon was specifically developed to detect 16S rRNA gene chimeras in PCR-clone libraries of environmental samples but can be applied to other nucleotide sequence alignments.

引用

页码：2317 / 2319

页数：3

共 11 条

[1] BROSIUS J, 1978, P NATL ACAD SCI USA, V75, P4801, DOI 10.1073/pnas.75.10.4801
[2] The Ribosomal Database Project (RDP-II): previewing a new autoaligner that allows regular updates and the new prokaryotic taxonomy
Cole, JR
Chai, B
Marsh, TL
Farris, RJ
Wang, Q
Kulam, SA
Chandra, S
McGarrell, DM
Schmidt, TM
Garrity, GM
Tiedje, JM
[J]. NUCLEIC ACIDS RESEARCH, 2003, 31 (01) : 442 - 443
[3] Chimeric 16S rDNA sequences of diverse origin are accumulating in the public databases
Hugenholtz, P
Huber, T
[J]. INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY, 2003, 53 : 289 - 293
[4] Jukes TH, 1969, MAMMALIAN PROTEIN ME, P21, DOI [DOI 10.1016/B978-1-4832-3211-9.50009-7, DOI 10.1093/BIOINFORMATICS/BTM404]
[5] A new computational method for detection of chimeric 16S rRNA artifacts generated by PCR amplification from mixed bacterial populations
Komatsoulis, GA
Waterman, MS
[J]. APPLIED AND ENVIRONMENTAL MICROBIOLOGY, 1997, 63 (06) : 2338 - 2346
[6] Lane D.J., 1991, NUCL ACID TECHNIQUES, P177
[7] POTENTIAL RISKS OF GENE AMPLIFICATION BY PCR AS DETERMINED BY 16S RDNA ANALYSIS OF A MIXED-CULTURE OF STRICT BAROPHILIC BACTERIA
LIESACK, W
WEYLAND, H
STACKEBRANDT, E
[J]. MICROBIAL ECOLOGY, 1991, 21 (03) : 191 - 198
[8] EVALUATION OF NEAREST-NEIGHBOR METHODS FOR DETECTION OF CHIMERIC SMALL-SUBUNIT RIBOSOMAL-RNA SEQUENCES
ROBISONCOX, JF
BATESON, MM
WARD, DM
[J]. APPLIED AND ENVIRONMENTAL MICROBIOLOGY, 1995, 61 (04) : 1240 - 1245
[9] CLUSTAL-W - IMPROVING THE SENSITIVITY OF PROGRESSIVE MULTIPLE SEQUENCE ALIGNMENT THROUGH SEQUENCE WEIGHTING, POSITION-SPECIFIC GAP PENALTIES AND WEIGHT MATRIX CHOICE
THOMPSON, JD
HIGGINS, DG
GIBSON, TJ
[J]. NUCLEIC ACIDS RESEARCH, 1994, 22 (22) : 4673 - 4680
[10] von Wintzingerode F, 1997, FEMS MICROBIOL REV, V21, P213

← 1 2 →