Results 31 to 40 of about 199,466 (296)

Reconstruction of ancestral gene order after segmental duplication and gene loss [PDF]

Computational Systems Bioinformatics. CSB2003. Proceedings of the 2003 IEEE Bioinformatics Conference. CSB2003, 2004
As gene order evolves through a variety of chromosomal rearrangements, conserved segments provide important insight into evolutionary relationships and functional roles of genes. However, gene loss within otherwise conserved segments, as typically occurs following large-scale genome duplication, has received limited algorithmic study.
J. Huan, J. Prins, W. Wang, T. Vision
openaire   +1 more source

iGTP: A software package for large-scale gene tree parsimony analysis

BMC Bioinformatics, 2010
Background The ever-increasing wealth of genomic sequence information provides an unprecedented opportunity for large-scale phylogenetic analysis. However, species phylogeny inference is obfuscated by incongruence among gene trees due to evolutionary ...
Fernández-Baca David, Wehe André, Bansal Mukul S, Chaudhary Ruchi, Eulenstein Oliver   +4 more
doaj   +1 more source

The evolutionary dynamics of the Saccharomyces cerevisiae protein interaction network after duplication [PDF]

, 2008
Gene duplication is an important mechanism in the evolution of protein interaction networks. Duplications are followed by the gain and loss of interactions, rewiring the network at some unknown rate.
A. Presser, Barabasi, Batada, Baur, Dehal, Guldener, Ho, Hughes, Ispolatov, Jaillon, Kafri, Kellis, Langkjaer, M. B. Elowitz, M. Kellis, Marianayagam, Milo, Musso, Papp, Pastor-Satorras, Pereira-Leal, R. Kishony, Salwinski, Scannell, Tirosh, Uetz, Wagner, Wagner, Wapinski, Wolfe, Wolfe, Xenarios, Xenarios, Xenarios   +33 more
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Divergent Retention of Sucrose Metabolism Genes after Whole Genome Triplication in the Tomato (Solanum lycopersicum)

Plants, 2023
Sucrose, the primary carbon transport mode and vital carbohydrate for higher plants, significantly impacts plant growth, development, yield, and quality formation. Its metabolism involves three key steps: synthesis, transport, and degradation. Two genome
Yang Xu, Zhuping Yao, Yuan Cheng, Meiying Ruan, Qingjing Ye, Rongqing Wang, Guozhi Zhou, Jia Liu, Chaochao Liu, Hongjian Wan   +9 more
doaj   +1 more source

Efficient Exploration of the Space of Reconciled Gene Trees [PDF]

, 2013
Gene trees record the combination of gene level events, such as duplication, transfer and loss, and species level events, such as speciation and extinction.
Boussau, Bastien, Daubin, Vincent, Rosikiewicz, Wojciech, Szöllősi, Gergely J., Tannier, Eric   +4 more
core   +6 more sources

The shape of human gene family phylogenies

BMC Evolutionary Biology, 2006
Background The shape of phylogenetic trees has been used to make inferences about the evolutionary process by comparing the shapes of actual phylogenies with those expected under simple models of the speciation process.
Cotton James A, Page Roderic DM
doaj   +1 more source

Reconciliation Revisited: Handling Multiple Optima when Reconciling with Duplication, Transfer, and Loss [PDF]

, 2013
Phylogenetic tree reconciliation is a powerful approach for inferring evolutionary events like gene duplication, horizontal gene transfer, and gene loss, which are fundamental to our understanding of molecular evolution.
A. Tofigh, A.J. Vilella, B. Sennblad, C. Chauve, C. Conow, C.E.V. Storm, E.V. Koonin, F. Rutschmann, I. Wapinski, J.-P. Doyon, J.G. Burleigh, K.Y. Gorbunov, L.A. David, M. Charleston, M. Goodman, M. Stolzer, M.D. Rasmussen, M.S. Bansal, P. Bonizzoni, P. Górecki, R. Heijden van der, R.D.M. Page, Y. Ovadia, Z.Z. Chen   +23 more
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Bacterial microevolution and the Pangenome [PDF]

, 2020
The comparison of multiple genome sequences sampled from a bacterial population reveals considerable diversity in both the core and the accessory parts of the pangenome.
A Bankevich, AE Darling, AE Darling, AJ Page, AO Kislyuk, B Charlesworth, C Buckee, C Collins, C Wiuf, CM Thomas, CS Pepperell, DJ Wilson, DR Zerbino, E Jacox, F Lassalle, GE Sims, GJ Szollosi, GJ Szollosi, GJ Szollosi, H Ochman, IJ Wilson, J Hedge, J Lawrence, JB Joy, JFC Kingman, KAA Jolley, KE Dingle, KT Konstantinidis, L Li, L Petersen, M Csurös, M Nordborg, M Pagel, M Steinegger, M Touchon, M Vos, M Vos, M Vos, MJ Ward, MTG Holden, NA Rosenberg, NJ Croucher, P Donnelly, PAP Moran, R Griffiths, RC Griffiths, RG Everitt, RK Aziz, S Castillo-Ramírez, S Kurtz, S Wright, SF Altschul, SK Sheppard, SK Sheppard, SS Abby, SV Angiuoli, T Ohta, T Seemann, TG Vaughan, WP Maddison, X Didelot, X Didelot, X Didelot, X Didelot, X Didelot, X Didelot, X Didelot, Z Yang, Z Zhou   +68 more
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Lineage-Specific Duplication and Loss of Pepsinogen Genes in Hominoid Evolution [PDF]

Journal of Molecular Evolution, 2010
Fourteen different pepsinogen-A cDNAs and one pepsinogen-C cDNA have been cloned from gastric mucosa of the orangutan, Pongo pygmaeus. Encoded pepsinogens A were classified into two groups, i.e., types A1 and A2, which are different in acidic character.
Narita, Yuichi, Oda, Sen-ichi, Takenaka, Osamu, Kageyama, Takashi   +3 more
openaire   +2 more sources

Evolutionary ecology of opsin gene sequence, expression and repertoire. [PDF]

, 2017
Linking molecular evolution to biological function is a long-standing challenge in evolutionary biology. Some of the best examples of this involve opsins, the genes that encode the molecular basis of light reception.
Owens, Gregory L, Rennison, Diana J
core   +1 more source