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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Deep metazoan phylogeny : the backbone of the tree of life : new insights from analyses of molecules, morphology, and theory of data analysis
TL;DR: This work provides the most comprehensive overview available of the state of the art in this exciting field of evolutionary research with a focus on nervous systems.
Journal ArticleDOI
Hidden histories of gene flow in highland birds revealed with genomic markers.
Eugenia Zarza,Brant C. Faircloth,Whitney L. E. Tsai,Robert W. Bryson,Robert W. Bryson,John Klicka,John E. McCormack +6 more
TL;DR: Results show how a species complex thought to be a model for vicariance can reveal a more reticulate history when a broader portion of the genome is queried, and predict that speciation‐with‐bouts‐of‐gene‐flow will turn out to beA common mode of speciation.
Journal ArticleDOI
The Role of a Manager’s Intangible Capabilities in Resource Acquisition and Sustainable Competitive Performance
TL;DR: In this paper, the authors examined the role of intellectual capital in sustainable competitive performance with a mediating role of resource acquisition in small and medium enterprises (SMEs) and assessed the moderating roles of financial literacy and business experience between intellectual capital and resource acquisition.
Journal ArticleDOI
Phylogeny of Anophelinae using mitochondrial protein coding genes
Peter G. Foster,Tatiane Marques Porangaba de Oliveira,Eduardo Sterlino Bergo,Jan E. Conn,Jan E. Conn,Denise Cristina Sant’Ana,Sandra Sayuri Nagaki,Silvio Shigueo Nihei,Carlos José Einicker Lamas,Christian R. González,Caio Cesar Moreira,Maria Anice Mureb Sallum +11 more
TL;DR: These findings provided robust evidence for elevating the monophyletic groupings Kerteszia, Lophopodomyia, Nyssorhynchus and Stethomyia to genus level and genus Anopheles to include subgenera Anophele, Baimaia, Cellia and Christya.
Posted ContentDOI
OrganellarGenomeDRAW (OGDRAW) version 1.3.1: expanded toolkit for the graphical visualization of organellar genomes
TL;DR: A new version of OGDRAW equipped with a new front end that has now access to a local copy of the organelle genome database of the NCBI RefSeq project and enables the user to easily visualize large sets of organellar genomes spanning entire taxonomic clades.
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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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.
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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.
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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