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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Posted ContentDOI
MitoZ: A toolkit for mitochondrial genome assembly, annotation and visualization
TL;DR: The results showed that MitoZ can recover more full-length mitogenomes with higher accuracy compared to the other available mitogenome assemblers and will facilitate large scale ecological and evolutionary studies.
Posted ContentDOI
Complete mitogenome of endemic Plum-headed parakeet Psittacula cyanocephala – characterization and phylogenetic analysis
Prateek Dey,Sanjeev Kumar Sharma,Indrani Sarkar,Swapna Devi Ray,Padmnabhan Pramod,Venkata Hanumat Sastry Kochiganti,Goldin Quadros,Renu Singh,Ram Pratap Singh +8 more
TL;DR: The Psittacula genus was revealed as paraphyletic nature, containing at least 4 groups of species within the same genus, suggesting its taxonomic reconsideration, and Comparative codon usage analysis indicated the role of natural selection on PsITTacula mitogenomes.
Journal ArticleDOI
Complete mitochondrial genome of Mahachai betta, Betta mahachaiensis (Teleostei: Osphronemidae).
Worapong Singchat,Syed Farhan Ahmad,Nararat Laopichienpong,Aorarat Suntronpong,Tavun Pongsanarm,Thitipong Panthum,Nattakan Ariyaraphong,Navapong Subpayakom,Sahabhop Dokkaew,Narongrit Muangmai,Prateep Duengkae,Kornsorn Srikulnath +11 more
TL;DR: A complete mitochondrial genome (mitogenome) of B. mahachaiensis was determined to support conservation programs and create a reference annotated genome that can be utilized to sustain biodiversity and eco-management of the betta to improve conservation programs.
Journal ArticleDOI
The complete mitochondrial genome of the common pine vole Terricola subterraneus (Arvicolinae, Rodentia).
Olga V. Bondareva,N. I. Abramson +1 more
TL;DR: The complete mitochondrial genome of the common pine vole Microtus (Terricola) subterraneus was sequenced for the first time using Illumina next-generation sequencing (NGS) technology and showed a classic taxon pattern.
Journal ArticleDOI
Complete mitochondrial genome of the Amur hedgehog Erinaceus amurensis (Erinaceidae) and higher phylogeny of the family Erinaceidae.
TL;DR: The complete mitogenome of the Amur hedgehog Erinaceus amurensis was sequenced and characterized to help to understand the codon usage pattern and molecular evolution of E. amurnsis, and provide insight into inter-generic relationships within the family Erinaceidae.
References
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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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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.
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NCBI Reference Sequence (RefSeq): a curated non-redundant sequence database of genomes, transcripts and proteins
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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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