scholarly journals Comparative genomics of metabolic pathways inMycobacteriumspecies: gene duplication, gene decay and lateral gene transfer

2006 ◽  
Vol 30 (6) ◽  
pp. 906-925 ◽  
Author(s):  
Pradeep Reddy Marri ◽  
John P. Bannantine ◽  
Geoffrey B. Golding
Keyword(s):  
Comparative Genomics ◽  
Gene Transfer ◽  
Gene Duplication ◽  
Lateral Gene Transfer ◽  
Metabolic Pathways ◽  
Gene Decay

Evolution of Base Excision Repair in Entamoeba histolytica is shaped by gene loss, gene duplication, and lateral gene transfer

DNA Repair ◽  
2019 ◽  
Vol 76 ◽  
pp. 76-88 ◽  
Author(s):  
Carlos H. Trasviña-Arenas ◽  
Sheila S. David ◽  
Luis Delaye ◽  
Elisa Azuara-Liceaga ◽  
Luis G. Brieba
Keyword(s):  
Gene Transfer ◽  
Gene Duplication ◽  
Entamoeba Histolytica ◽  
Lateral Gene Transfer ◽  
Base Excision Repair ◽  
Gene Loss ◽  
Excision Repair ◽  
Base Excision

scholarly journals Lateral Gene Transfer and Gene Duplication Played a Key Role in the Evolution of Mastigamoeba balamuthi Hydrogenosomes

2015 ◽  
Vol 32 (4) ◽  
pp. 1039-1055 ◽  
Author(s):  
Eva Nývltová ◽  
Courtney W. Stairs ◽  
Ivan Hrdý ◽  
Jakub Rídl ◽  
Jan Mach ◽  
...  
Keyword(s):  
Gene Transfer ◽  
Gene Duplication ◽  
Lateral Gene Transfer

scholarly journals Genome-Wide Analysis of PL7 Alginate Lyases in the Genus Zobellia

Molecules ◽  
2021 ◽  
Vol 26 (8) ◽  
pp. 2387
Author(s):  
Nadezhda Chernysheva ◽  
Evgeniya Bystritskaya ◽  
Galina Likhatskaya ◽  
Olga Nedashkovskaya ◽  
Marina Isaeva
Keyword(s):  
Comparative Genomics ◽  
Gene Transfer ◽  
Horizontal Gene Transfer ◽  
Gene Duplication ◽  
Genetic Variability ◽  
Structure Modeling ◽  
Genome Wide Analysis ◽  
Polysaccharide Lyase ◽  
Genome Wide ◽  
Alginate Lyases

We carried out a detailed investigation of PL7 alginate lyases across the Zobellia genus. The main findings were obtained using the methods of comparative genomics and spatial structure modeling, as well as a phylogenomic approach. Initially, in order to elucidate the alginolytic potential of Zobellia, we calculated the content of polysaccharide lyase (PL) genes in each genome. The genus-specific PLs were PL1, PL6, PL7 (the most abundant), PL14, PL17, and PL40. We revealed that PL7 belongs to subfamilies 3, 5, and 6. They may be involved in local and horizontal gene transfer and gene duplication processes. Most likely, an individual evolution of PL7 genes promotes the genetic variability of the Alginate Utilization System across Zobellia. Apparently, the PL7 alginate lyases may acquire a sub-functionalization due to diversification between in-paralogs.

scholarly journals Gene duplication drives genome expansion in Thaumarchaeota

2020 ◽  
Author(s):  
Paul O. Sheridan ◽  
Sebastien Raguideau ◽  
Christopher Quince ◽  
Tom A. Williams ◽  
Cécile Gubry-Rangin ◽  
...  
Keyword(s):  
Gene Transfer ◽  
Gene Duplication ◽  
Lateral Gene Transfer ◽  
Keystone Species ◽  
Gene Families ◽  
Large Gene ◽  
Genome Expansion ◽  
Genomic Divergence ◽  
Gene Duplication And Loss ◽  
The Impact

AbstractAmmonia-oxidising archaea of the phylum Thaumarchaeota are keystone species in global nitrogen cycling. However, only three of the six known families of the terrestrially ubiquitous order Nitrososphaerales possess representative genomes. Here we provide genomes for the three remaining families and examine the impact of gene duplication, loss and transfer events across the entire phylum. Much of the genomic divergence in this phylum is driven by gene duplication and loss, but we also detected early lateral gene transfer that introduced considerable proteome novelty. In particular, we identified two large gene transfer events into Nitrososphaerales. The fate of gene families originating on these branches was highly lineage-specific, being lost in some descendant lineages, but undergoing extensive duplication in others, suggesting niche-specific roles within soil and sediment environments. Overall, our results suggest that lateral gene transfer followed by gene duplication drives Nitrososphaerales evolution, highlighting a previously under-appreciated mechanism of genome expansion in archaea.

scholarly journals Comparative genomics and the role of lateral gene transfer in the evolution of bovine adapted Streptococcus agalactiae

2011 ◽  
Vol 11 (6) ◽  
pp. 1263-1275 ◽  
Author(s):  
Vincent P. Richards ◽  
Ping Lang ◽  
Paulina D. Pavinski Bitar ◽  
Tristan Lefébure ◽  
Ynte H. Schukken ◽  
...  
Keyword(s):  
Comparative Genomics ◽  
Gene Transfer ◽  
Lateral Gene Transfer ◽  
Streptococcus Agalactiae

scholarly journals The Impact of Gene Duplication, Insertion, Deletion, Lateral Gene Transfer and Sequencing Error on Orthology Inference: A Simulation Study

PLoS ONE ◽  
2013 ◽  
Vol 8 (2) ◽  
pp. e56925 ◽  
Author(s):  
Daniel A. Dalquen ◽  
Adrian M. Altenhoff ◽  
Gaston H. Gonnet ◽  
Christophe Dessimoz
Keyword(s):  
Gene Transfer ◽  
Gene Duplication ◽  
Lateral Gene Transfer ◽  
Simulation Study ◽  
Sequencing Error ◽  
The Impact

scholarly journals Complete Genome Sequence of wAna, the Wolbachia Endosymbiont of Drosophila ananassae

2019 ◽  
Vol 8 (43) ◽  
Author(s):  
Mark T. Gasser ◽  
Matthew Chung ◽  
Robin E. Bromley ◽  
Suvarna Nadendla ◽  
Julie C. Dunning Hotopp
Keyword(s):  
Comparative Genomics ◽  
Gene Transfer ◽  
Lateral Gene Transfer ◽  
Genome Sequence ◽  
Complete Genome Sequence ◽  
Complete Genome ◽  
Drosophila Ananassae ◽  
Content Type ◽  
Oxford Nanopore ◽  
Wolbachia Endosymbiont

Here, we present the complete genome sequence of the Wolbachia endosymbiont wAna, isolated from Drosophila ananassae and derived from Oxford Nanopore and Illumina sequencing. We anticipate that this will aid in Wolbachia comparative genomics and the assembly of D. ananassae specifically in regions containing extensive lateral gene transfer events.

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