Results 61 to 70 of about 199,466 (296)

Efficient genome-scale phylogenetic analysis under the duplication-loss and deep coalescence cost models

BMC Bioinformatics, 2010
Background Genomic data provide a wealth of new information for phylogenetic analysis. Yet making use of this data requires phylogenetic methods that can efficiently analyze extremely large data sets and account for processes of gene evolution, such as ...
Burleigh J Gordon, Bansal Mukul S, Eulenstein Oliver   +2 more
doaj   +1 more source

Consequences of lineage-specific gene loss on functional evolution of surviving paralogs: ALDH1A and retinoic acid signaling in vertebrate genomes.

PLoS Genetics, 2009
Genome duplications increase genetic diversity and may facilitate the evolution of gene subfunctions. Little attention, however, has focused on the evolutionary impact of lineage-specific gene loss.
Cristian Cañestro, Julian M Catchen, Adriana Rodríguez-Marí, Hayato Yokoi, John H Postlethwait   +4 more
doaj   +1 more source

Molecular evolution and expansion analysis of the NAC transcription factor in Zea mays. [PDF]

PLoS ONE, 2014
NAC (NAM, ATAF1, 2 and CUC2) family is a plant-specific transcription factor and it controls various plant developmental processes. In the current study, 124 NAC members were identified in Zea mays and were phylogenetically clustered into 13 distinct ...
Kai Fan, Ming Wang, Ying Miao, Mi Ni, Noreen Bibi, Shuna Yuan, Feng Li, Xuede Wang   +7 more
doaj   +1 more source

Multi-faceted analysis provides little evidence for recurrent whole-genome duplications during hexapod evolution

BMC Biology, 2020
Background Gene duplication events play an important role in the evolution and adaptation of organisms. Duplicated genes can arise through different mechanisms, including whole-genome duplications (WGDs).
Dick Roelofs, Arthur Zwaenepoel, Tom Sistermans, Joey Nap, Andries A. Kampfraath, Yves Van de Peer, Jacintha Ellers, Ken Kraaijeveld   +7 more
doaj   +1 more source

A probabilistic model for gene content evolution with duplication, loss, and horizontal transfer

, 2005
We introduce a Markov model for the evolution of a gene family along a phylogeny. The model includes parameters for the rates of horizontal gene transfer, gene duplication, and gene loss, in addition to branch lengths in the phylogeny. The likelihood for
A.B. Simonson, B. Boussau, B. Snel, B. Snel, B.E. Dutilh, B.G. Mirkin, C. Pál, C.G. Kurland, D.H. Huson, E. Belda, E.A. Herniou, E.D. Green, E.J. Deeds, E.L.L. Sonnhammer, E.V. Koonin, F. Delsuc, F. Tekaia, G.D.P. Clarke, G.P. Karev, G.P. Karev, G.P. Karev, I.K. Jordan, J. Lin, J.A. Lake, J.O. Korbel, J.P. Gogarten, J.T. Herbeck, K.H. Wolfe, M. Csűrös, M. Pellegrini, M.G. Montague, M.W. Hahn, R.L. Tatusov, S. Karlin, S. Yang, S.T. Fitz-Gibbon, T. Pupko, V. Kunin, V. Kunin, W. Feller, W.J. Reed, X. Gu, Y. Boucher, Y.I. Wolf   +43 more
core   +2 more sources

Multiplex ligation-dependent probe amplification (MLPA) analysis is an effective tool for the detection of novel intragenic PLA2G6 mutations: Implications for molecular diagnosis [PDF]

, 2010
Phospholipase associated neurodegeneration (PLAN) comprises a heterogeneous group of autosomal recessive neurological disorders caused by mutations in the PLA2G6 gene. Direct gene sequencing detects 85% mutations in infantile neuroaxonal dystrophy.
Brady, Angela F, Crompton, Danielle, De Gressi, Susanna, Foster, Kathleen, Hardy, Carol, Hughes, Imelda, Kurian, Manju A, Lunt, Peter, MacPherson, Lesley, Maher, Eamonn R, McDonald, Fiona, Morgan, Neil V, Pike, Michael G, Rehal, Pauline K, Smith, Matthew   +14 more
core   +1 more source

Repression and loss of gene expression outpaces activation and gain in recently duplicated fly genes [PDF]

Proceedings of the National Academy of Sciences, 2006
Evolutionists widely acknowledge that regulatory genetic changes are of paramount importance for morphological and genomic evolution. Nevertheless, mechanistic complexity and a paucity of data from nonmodel organisms have prevented testing and quantifying universal hypotheses about the macroevolution of gene regulatory mechanisms.
Todd H, Oakley, Bjørn, Ostman, Asa C V, Wilson   +2 more
openaire   +2 more sources

Structural properties of the reconciliation space and their applications in enumerating nearly-optimal reconciliations between a gene tree and a species tree

BMC Bioinformatics, 2011
Introduction A gene tree for a gene family is often discordant with the containing species tree because of its complex evolutionary course during which gene duplication, gene loss and incomplete lineage sorting events might occur.
Zhang Louxin, Wu Taoyang
doaj   +1 more source

Gene Duplication and Environmental Adaptation within Yeast Populations [PDF]

, 2016
PublishedPopulation-level differences in the number of copies of genes resulting from gene duplication and loss have recently been recognized as an important source of variation in eukaryotes.
Ames, RM, Delneri, D, Hentges, KE, Lovell, SC, Rash, BM, Robertson, DL   +5 more
core   +1 more source

Genome-Wide Identification, Evolution, and Expression of GDSL-Type Esterase/Lipase Gene Family in Soybean

Frontiers in Plant Science, 2020
GDSL-type esterase/lipase proteins (GELPs) belong to the SGNH hydrolase superfamily and contain a conserved GDSL motif at their N-terminus. GELPs are widely distributed in nature, from microbes to plants, and play crucial roles in growth and development,
Hong-Gang Su, Hong-Gang Su, Xiao-Hong Zhang, Ting-Ting Wang, Wen-Liang Wei, Yan-Xia Wang, Jun Chen, Yong-Bin Zhou, Ming Chen, You-Zhi Ma, Zhao-Shi Xu, Dong-Hong Min   +11 more
doaj   +1 more source