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
Citations
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The complete mitogenome of Eucryptorrhynchus brandti (Harold) (Insecta: Coleoptera: Curculionidae).
Xiaoning Nan,Cong Wei,Hong He +2 more
TL;DR: The complete mitochondrial genome of Eucryptorrhynchus brandti (Harold) (Insecta: Coleoptera: Curculionidae) was reconstructed from whole-genome Illumina Hiseq 2000 sequencing data with an average coverage of 1406.7X.
Journal ArticleDOI
Complete mitochondrial genome of Salminus brasiliensis (Characiformes, Characidae).
Pedro Ferreira Pinto Brandão-Dias,Anderson Oliveira do Carmo,Ana Paula Vimieiro Martins,Ricardo José Gonzaga Pimenta,Carlos Bernardo Mascarenhas Alves,Evanguedes Kalapothakis +5 more
TL;DR: The complete mitochondrial genome of the fish Salminus brasiliensis, popularly known as dourado, is reported, containing 13 protein-coding genes, 2 rRNA genes, 22 tRNA genes and a non- coding Control Region of 2128 bp.
Journal ArticleDOI
The complete mitochondrial genome of Conus striatus (Neogastropoda: Conidae)
TL;DR: The complete mitochondrial genome sequence of cone snail Conus capitaneus, a kind of worm-hunting sea snails, was performed by next-generation sequencing and shows 79.8% identity with C. tribblei, which also belongs to worm-hunter sea snail.
Journal ArticleDOI
Mitochondrial genome of Scutogyrus longicornis (Monogenea: Dactylogyridea), a parasite of Nile tilapia Oreochromis niloticus.
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Whole-genome de novo sequencing reveals unique genes that contributed to the adaptive evolution of the Mikado pheasant.
Chien-Yueh Lee,Ping-Han Hsieh,Li-Mei Chiang,Amrita Chattopadhyay,Kuan-Yi Li,Yi-Fang Lee,Tzu-Pin Lu,Liang-Chuan Lai,En-Chung Lin,Hsinyu Lee,Shih-Torng Ding,Mong-Hsun Tsai,Chien-Yu Chen,Eric Y. Chuang,Eric Y. Chuang +14 more
TL;DR: This study provides a valuable genomic resource for the Mikado pheasant, insights into its adaptation to high altitude, and the evolutionary history of the genus Syrmaticus, which could potentially be useful for future studies that investigate molecular evolution, genomics, ecology, and immunogenetics.
References
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Journal ArticleDOI
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.
Journal ArticleDOI
tRNAscan-SE: a program for improved detection of transfer RNA genes in genomic sequence.
Todd M. Lowe,Sean R. Eddy +1 more
TL;DR: A program is described, tRNAscan-SE, which identifies 99-100% of transfer RNA genes in DNA sequence while giving less than one false positive per 15 gigabases.
Journal ArticleDOI
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.
Journal ArticleDOI
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.
Journal ArticleDOI
Automatic annotation of organellar genomes with DOGMA
TL;DR: The Dual Organellar GenoMe Annotator (DOGMA) automates the annotation of organellar genomes and allows the use of BLAST searches against a custom database, and conservation of basepairing in the secondary structure of animal mitochondrial tRNAs to identify and annotate genes.
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