Journal ArticleDOI
MITOS: Improved de novo metazoan mitochondrial genome annotation
Matthias Bernt,Alexander Donath,Frank Jühling,Frank Jühling,Fabian Externbrink,Catherine Florentz,Guido Fritzsch,Joern Pütz,Martin Middendorf,Peter F. Stadler +9 more
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TLDR
The MITOS pipeline is designed to compute a consistent de novo annotation of the mitogenomic sequences and it is shown that the results of MITOS match RefSeq and MitoZoa in terms of annotation coverage and quality.About:
This article is published in Molecular Phylogenetics and Evolution.The article was published on 2013-11-01. It has received 3323 citations till now. The article focuses on the topics: RefSeq.read more
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Chromosome-scale genome assembly of the brown anole (Anolis sagrei), a model species for evolution and ecology
Anthony J. Geneva,Sungdae Park,Dan G. Bock,P. de Mello,F. Sarigol,Marc Tollis,C. Donihue,Robert Graham Reynolds,Nathalie Feiner,Ashley M. Rasys,James D. Lauderdale,S. G. Minchey,Aaron J. Alcala,Carlos Infante,Jason J. Kolbe,Dolph Schluter,Doug Menke,Jonathan B. Losos +17 more
TL;DR: In this article, a new, highly complete chromosome-scale genome assembly for the brown anole, Anolis sagrei, has been reported for which a high-quality reference genome was long overdue.
Journal ArticleDOI
OUP accepted manuscript
TL;DR: In this article , the complete mitochondrial genome of Farfantepenaeus duorarum was reported and the mitochondrial gene order was identical to that reported for congeners, indicating that all genes are evolving under purifying selection.
Journal ArticleDOI
Characterization of the complete mitochondrial genome of short-tailed field vole, Microtus agrestis
TL;DR: By phylogenetic analysis using Bayesian method, M. agrestisa showed the closest relationship with the southern vole (Microtus rossiaemeridionalis), and the complete mitochondrial genome was determined through sequencing of PCR fragments.
Journal ArticleDOI
Minimization of energy transduction confers resistance to phosphine in the rice weevil, Sitophilus oryzae
Kyeongnam Kim,Jeong Oh Yang,Jae Yoon Sung,Ji Young Lee,Jeong Sun Park,Heung Sik Lee,Byung-Ho Lee,Yonglin Ren,Dong Woo Lee,Sung-Eun Lee +9 more
TL;DR: The data suggest that reprogrammed metabolism represents a survival strategy of SR insect pests for the compensation of minimized energy transduction under anoxic conditions and will support the development of new strategies to control insect pests.
Journal ArticleDOI
Characterization of the complete mitochondrial genome of Uvitellina sp., representative of the family Cyclocoelidae and phylogenetic implications.
TL;DR: The availability of the mt genome sequences of Uvitellina sp.
References
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Basic Local Alignment Search Tool
TL;DR: A new approach to rapid sequence comparison, basic local alignment search tool (BLAST), directly approximates alignments that optimize a measure of local similarity, the maximal segment pair (MSP) score.
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NCBI Reference Sequence (RefSeq): a curated non-redundant sequence database of genomes, transcripts and proteins
TL;DR: The National Center for Biotechnology Information Reference Sequence (RefSeq) database provides a non-redundant collection of sequences representing genomic data, transcripts and proteins that pragmatically includes sequence data that are currently publicly available in the archival databases.
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Biopython: freely available Python tools for computational molecular biology and bioinformatics
Peter J. A. Cock,Tiago Antao,Jeffrey T. Chang,Brad Chapman,Cymon J. Cox,Andrew Dalke,Iddo Friedberg,Thomas Hamelryck,Frank Kauff,Bartosz Wilczyński,Michiel J. L. de Hoon +10 more
TL;DR: Biopython includes modules for reading and writing different sequence file formats and multiple sequence alignments, dealing with 3D macro molecular structures, interacting with common tools such as BLAST, ClustalW and EMBOSS, accessing key online databases, as well as providing numerical methods for statistical learning.
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Automatic annotation of organellar genomes with DOGMA
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