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A long-branch attraction artifact reveals an adaptive radiation in Pseudomonas

Josselin Bodilis, Sandrine Nsigue Meilo, Pierre Cornelis, Paul De Vos UGent and Sylvie Barray (2011) MOLECULAR BIOLOGY AND EVOLUTION. 28(10). p.2723-2726
abstract
A significant proportion of protein-encoding gene phylogenies in bacteria is inconsistent with the species phylogeny. It was usually argued that such inconsistencies resulted from lateral transfers. Here, by further studying the phylogeny of the oprF gene encoding the major surface protein in the bacterial Pseudomonas genus, we found that the incongruent tree topology observed results from a long-branch attraction (LBA) artifact and not from lateral transfers. LBA in the oprF phylogeny could be explained by the faster evolution in a lineage adapted to the rhizosphere, highlighting an unexpected adaptive radiation. We argue that analysis of such artifacts in other inconsistent bacterial phylogenies could be a valuable tool in molecular ecology to highlight cryptic adaptive radiations in microorganisms.
Please use this url to cite or link to this publication:
author
organization
year
type
journalArticle (original)
publication status
published
subject
keyword
long-branch attraction, adaptive radiation, oprF, Pseudomonas, incongruence, molecular phylogeny, LATERAL GENE-TRANSFER, DIVERSITY, EVOLUTION, SEQUENCE, PROTEIN, OPRF, AERUGINOSA, SELECTION, MODEL, TREE
journal title
MOLECULAR BIOLOGY AND EVOLUTION
Mol. Biol. Evol.
volume
28
issue
10
pages
2723 - 2726
Web of Science type
Article
Web of Science id
000295184200001
JCR category
EVOLUTIONARY BIOLOGY
JCR impact factor
5.55 (2011)
JCR rank
4/45 (2011)
JCR quartile
1 (2011)
ISSN
0737-4038
DOI
10.1093/molbev/msr099
language
English
UGent publication?
yes
classification
A1
copyright statement
I have transferred the copyright for this publication to the publisher
id
2130351
handle
http://hdl.handle.net/1854/LU-2130351
date created
2012-06-04 11:00:28
date last changed
2016-12-19 15:42:05
@article{2130351,
  abstract     = {A significant proportion of protein-encoding gene phylogenies in bacteria is inconsistent with the species phylogeny. It was usually argued that such inconsistencies resulted from lateral transfers. Here, by further studying the phylogeny of the oprF gene encoding the major surface protein in the bacterial Pseudomonas genus, we found that the incongruent tree topology observed results from a long-branch attraction (LBA) artifact and not from lateral transfers. LBA in the oprF phylogeny could be explained by the faster evolution in a lineage adapted to the rhizosphere, highlighting an unexpected adaptive radiation. We argue that analysis of such artifacts in other inconsistent bacterial phylogenies could be a valuable tool in molecular ecology to highlight cryptic adaptive radiations in microorganisms.},
  author       = {Bodilis, Josselin and Meilo, Sandrine Nsigue and Cornelis, Pierre and De Vos, Paul and Barray, Sylvie},
  issn         = {0737-4038},
  journal      = {MOLECULAR BIOLOGY AND EVOLUTION},
  keyword      = {long-branch attraction,adaptive radiation,oprF,Pseudomonas,incongruence,molecular phylogeny,LATERAL GENE-TRANSFER,DIVERSITY,EVOLUTION,SEQUENCE,PROTEIN,OPRF,AERUGINOSA,SELECTION,MODEL,TREE},
  language     = {eng},
  number       = {10},
  pages        = {2723--2726},
  title        = {A long-branch attraction artifact reveals an adaptive radiation in Pseudomonas},
  url          = {http://dx.doi.org/10.1093/molbev/msr099},
  volume       = {28},
  year         = {2011},
}

Chicago
Bodilis, Josselin, Sandrine Nsigue Meilo, Pierre Cornelis, Paul De Vos, and Sylvie Barray. 2011. “A Long-branch Attraction Artifact Reveals an Adaptive Radiation in Pseudomonas.” Molecular Biology and Evolution 28 (10): 2723–2726.
APA
Bodilis, J., Meilo, S. N., Cornelis, P., De Vos, P., & Barray, S. (2011). A long-branch attraction artifact reveals an adaptive radiation in Pseudomonas. MOLECULAR BIOLOGY AND EVOLUTION, 28(10), 2723–2726.
Vancouver
1.
Bodilis J, Meilo SN, Cornelis P, De Vos P, Barray S. A long-branch attraction artifact reveals an adaptive radiation in Pseudomonas. MOLECULAR BIOLOGY AND EVOLUTION. 2011;28(10):2723–6.
MLA
Bodilis, Josselin, Sandrine Nsigue Meilo, Pierre Cornelis, et al. “A Long-branch Attraction Artifact Reveals an Adaptive Radiation in Pseudomonas.” MOLECULAR BIOLOGY AND EVOLUTION 28.10 (2011): 2723–2726. Print.