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MitoZoa specifications

Information


Unique identifier OMICS_04555
Name MitoZoa
Restrictions to use None
Community driven No
Data access Browse
User data submission Not allowed
Version 2.0
Maintained No

Maintainer


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Publications for MitoZoa

MitoZoa citations

 (12)
library_books

Adaptive Evolution of Energy Metabolism Related Genes in Hypoxia Tolerant Mammals

2017
Front Genet
PMCID: 5725996
PMID: 29270192
DOI: 10.3389/fgene.2017.00205

[…] 1 nuclear-encoded energy metabolism-related genes (Supplementary Table ). In addition, nucleotide sequences of 13 mitochondrial protein-coding genes from 101 species were downloaded from NCBI and the MitoZoa database (Supplementary Figure ). A total of 194 energy metabolism-related (nuclear and mitochondrial) genes were obtained. The EMP/GNG, PM, TCA, and OXPHOS metabolic pathways were composed of […]

call_split

The first complete mitogenome of the South China deep‐sea giant isopod Bathynomus sp. (Crustacea: Isopoda: Cirolanidae) allows insights into the early mitogenomic evolution of isopods

2017
Ecol Evol
PMCID: 5355201
PMID: 28331594
DOI: 10.1002/ece3.2737
call_split See protocol

[…] were initially re‐detected using two computer programs: tRNAscan‐SE version 1.21 (Lowe & Eddy, ) and ARWEN 1.2.3.c (Laslett & Canback, ). Confirmation was performed by blast searches of all tRNAs in MitoZoa 2.0 (de Meo et al., ).CGView (Stothard & Wishart, ) was used for a circular display of the Bathynomus sp. mitogenome, which was modified manually. The complete genome sequence has been submitt […]

library_books

The structure and diversity of human, animal and environmental resistomes

2016
Microbiome
PMCID: 5055678
PMID: 27717408
DOI: 10.1186/s40168-016-0199-5

[…] with default options. Taxonomic classification of the extracted bacterial 16S rRNA reads was carried out using the native Metaxa2 database of manually curated entries from SILVA (release 111) [] and MITOZOA (version 2.0; release 10) []. This procedure assigned the reads matching to SSU rRNA to individual taxonomic levels up to species and/or subspecies level. The taxonomic raw counts of each meta […]

call_split

The Complete Mitochondrial Genome of the Booklouse, Liposcelis decolor: Insights into Gene Arrangement and Genome Organization within the Genus Liposcelis

2014
PLoS One
PMCID: 3956861
PMID: 24637476
DOI: 10.1371/journal.pone.0091902
call_split See protocol

[…] meters. The base composition and codon usage were analyzed with BioEdit (http://bioedit.software.informer.com/) and DAMBE 5.3.9 . Sequences of mt genomes of other lice were retrieved from GenBank and MitoZoa () . […]

library_books

Ascidian Mitogenomics: Comparison of Evolutionary Rates in Closely Related Taxa Provides Evidence of Ongoing Speciation Events

2014
Genome Biol Evol
PMCID: 3971592
PMID: 24572017
DOI: 10.1093/gbe/evu041

[…] Mitochondrial genes were annotated by similarity to orthologous metazoan genes, taking advantage of the BlastN/BlastP service of the MitoZoa database (). The start codon of protein-coding genes (PCGs) was defined as the first ATG or nonstandard initiation codon (), not in overlap with the upstream gene and maximizing the similarity […]

library_books

Deep Sequencing of Mixed Total DNA without Barcodes Allows Efficient Assembly of Highly Plastic Ascidian Mitochondrial Genomes

2013
Genome Biol Evol
PMCID: 3698926
PMID: 23709623
DOI: 10.1093/gbe/evt081

[…] Mitochondrial genes were annotated by similarity to orthologous genes of metazoans, taking advantage of the BlastN/BlastP service of the MitoZoa database (). The start codon of a protein-coding gene was defined as the first ATG or the first nonstandard initiation codon () that does not cause overlap with the upstream gene and maximizes […]

Citations

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MitoZoa institution(s)
CASPUR, Consorzio interuniversitario per le Applicazioni di Supercalcolo per Universita e Ricerca, Rome, Italy; Dipartimento di Biochimica e Biologia Molecolare E. Quagliariello, Universita degli Studi di Bari, Bari, Italy; Dipartimento di Scienze Biomolecolari e Biotecnologie, Universita degli Studi di Milano, Milan, Italy; Istituto di Biomembrane e Bioenergetica, Consiglio Nazionale delle Ricerche, Bari, Italy
MitoZoa funding source(s)
Supported by the Ministero dell’Istruzione, dell’Universita e della Ricerca, Italy: Programma di Ricerca Scientifica di Rilevante Interesse Nazionale 2009; Progetto DM19410; Universita degli Studi di Milano, Italy: Programma dell’Universita per la Ricerca FIRST 2007; and Consiglio Nazionale delle Ricerche, Italy: LifeWatch.

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