TY - JOUR
T1 - T-BAs version 2.1
T2 - Tree-based alignment selector toolkit for evolutionary placement of DNA sequences and viewing alignments and specimen metadata on curated and custom trees
AU - Carbone, Ignazio
AU - White, James B.
AU - Miadlikowska, Jolanta
AU - Elizabeth Arnold, A.
AU - Miller, Mark A.
AU - Magain, Nicolas
AU - U'Ren, Jana M.
AU - Lutzoni, François
N1 - Funding Information:
Funding for the development of T-BAS version 2.1 was provided by the National Science Foundation (NSF) Genealogy of Life (GoLife) program to I.C. (DEB-1541418), A.E.A. (DEB-1541496), and F.L. and J.M. (DEB-1541548). The CIPRES RESTful API is supported by National Institutes of Health (NIH) 5 R01 GM1264635 and NSF DBI-1759844 and a generous award (TG-DEB090011) of computer time and development support from the XSEDE project (also sponsored by the U.S. National Science Foundation).
Funding Information:
Funding for the development of T-BAS version 2.1 was provided by the National Science Foundation (NSF) Genealogy of Life (GoLife) program to I.C. (DEB-1541418), A.E.A. (DEB-1541496), and F.L. and J.M. (DEB-1541548). The CIPRES RESTful API is supported by National Institutes of Health (NIH) 5 R01 GM1264635 and NSF DBI-1759844 and a generous award (TG-DEB090011) of computer time and development support from the XSEDE project (also sponsored by the U.S. National Science Foundation). We thank Conrad Schoch, Barbara Robbertse, and Pooja Strope for their help in retrieving and validating GenBank sequences for version 2 of the Pezizomycotina tree. We also thank the following for contributing published trees: Tim James (fungi), Laura Hug (bacteria), Danny Haelewaters (Laboulbeniomycetes), Sigisfredo Garnica (Sebacinales), Pedro Crous (Ramularia eucalypti species complex), Geromy Moore (Aspergillus section Flavi), and Kerry O'Donnell (Fusarium species complex). We appreciate the help of Vicki Cornish for assistance with T-BAS tutorials.
Publisher Copyright:
Copyright © 2019 Carbone et al.
PY - 2019/7/18
Y1 - 2019/7/18
N2 - The Tree-Based Alignment Selector (T-BAS) toolkit combines phylogenetic-based placement of DNA sequences with alignment and specimen metadata visualization tools in an integrative pipeline for analyzing microbial biodiversity. The release of T-BAS version 2.1 makes available reference phylogenies, supports multilocus sequence placements and permits uploading and downloading trees, alignments, and specimen metadata.
AB - The Tree-Based Alignment Selector (T-BAS) toolkit combines phylogenetic-based placement of DNA sequences with alignment and specimen metadata visualization tools in an integrative pipeline for analyzing microbial biodiversity. The release of T-BAS version 2.1 makes available reference phylogenies, supports multilocus sequence placements and permits uploading and downloading trees, alignments, and specimen metadata.
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U2 - 10.1128/MRA.00328-19
DO - 10.1128/MRA.00328-19
M3 - Article
AN - SCOPUS:85069708854
SN - 2169-8287
VL - 8
JO - Microbiology Resource Announcements
JF - Microbiology Resource Announcements
IS - 29
M1 - e00328-19
ER -