Characterization of Penaeus vannamei mitogenome focusing on genetic diversity

Autor: Márcia Danielle A. Dantas, Lucymara Fassarella Agnez-Lima, Rita C. B. Silva-Portela, Paulo Eduardo T. Soares, Daniel Carlos Ferreira Lanza
Rok vydání: 2021
Předmět:
0106 biological sciences
Heredity
01 natural sciences
Genome
Biochemistry
Database and Informatics Methods
Energy-Producing Organelles
0303 health sciences
education.field_of_study
Multidisciplinary
High-Throughput Nucleotide Sequencing
Genomics
Heteroplasmy
Mitochondrial DNA
Mitochondria
Nucleic acids
Ribosomal RNA
Medicine
Cellular Structures and Organelles
Transfer RNA
Sequence Analysis
Research Article
Forms of DNA
Bioinformatics
Science
Population
Biology
Bioenergetics
Research and Analysis Methods
010603 evolutionary biology
03 medical and health sciences
Penaeidae
Genetics
Animals
education
Indel
Non-coding RNA
Alleles
030304 developmental biology
Genetic diversity
Polymorphism
Genetic
Biology and Life Sciences
Cell Biology
DNA
Hypervariable region
Evolutionary biology
Genetic Loci
Genome
Mitochondrial
RNA
Sequence Alignment
Ribosomes
Zdroj: PLoS ONE
PLoS ONE, Vol 16, Iss 7, p e0255291 (2021)
ISSN: 1932-6203
Popis: The diversity of the Penaeus vannamei mitochondrial genome has still been poorly characterized, there are no validated mitochondrial markers available for populational studies, and the heteroplasmy has not yet been investigated in this species. In this study, metagenomic reads extracted from the muscle of a single individual were used to assemble the mitochondrial genome (mtDNA). These data associated with mitochondrial genomes previously described allowed to evaluate the inter-individual variability and heteroplasmy. Comparison among 45 mtDNA control regions led to the detection of conserved and variable segments and the characterization of two hypervariable regions. The analysis of diversity revealed mostly low frequency polymorphisms, and heteroplasmy was found in practically all mitochondrial genes, with a high occurrence of indels. These results indicate that the design of mitochondrial markers for P. vannamei must be done with caution. The mapping of conserved and variable regions and the characterization of heteroplasmy presented here will contribute to increasing the efficiency of mitochondrial markers for population or individual studies.
Databáze: OpenAIRE
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