Novel and Broadly Applicable Microsatellite Markers in Identified Chromosomes of the Philippine Dengue Mosquitoes, <i>Aedes aegypti</i> (Diptera: Culicidae)

Labiros, Dinesse A; Catalig, Antonio Mari P; Ymbong, Rhoniel Ryan; Sakuntabhai, Anavaj; Lluisma, Arturo O.; Edillo, Frances E.

doi:10.1093/jme/tjab194

Cited by 4 publications

(2 citation statements)

References 49 publications

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“…Microsatellites or Simple-Sequence Repeats (SSRs) are tandemly repeated DNA sequences composed of mononucleotide, dinucleotide, trinucleotide, tetranucleotide, pentanucleotide and hexanucleotide units located throughout the prokaryotic [1] and eukaryotic genomes [2][3][4], in both non-coding and coding regions of DNA [5]. Moreover, retrotransposons may also be associated with microsatellites [6].…”

Section: Introductionmentioning

confidence: 99%

Comparison of microsatellite distribution in the genomes of Pteropus vampyrus and Miniopterus natalensis (Chiroptera)

Shao

Wei²,

Qiao³

et al. 2023

BMC Genom Data

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Background Microsatellites are a ubiquitous occurrence in prokaryotic and eukaryotic genomes. Microsatellites have become one of the most popular classes of genetic markers due to their high reproducibility, multi-allelic nature, co-dominant mode of inheritance, abundance and wide genome coverage. We characterised microsatellites in the genomes and genes of two bat species, Pteropus vampyrus and Miniopterus natalensis. This characterisation was used for gene ontology analysis and the Kyoto Encyclopedia of Genes and Genomes pathway enrichment of coding sequences (CDS). Results Compared to M. natalensis, the genome size of P. vampyrus is larger and contains more microsatellites, but the total diversity of both species is similar. Mononucleotide and dinucleotide repeats were the most diverse in the genome of the two species. In each bat species, the microsatellite bias was obvious. The microsatellites with the largest number of repeat motifs in P. vampyrus from mononucleotide to hexanucleotide were (A)n, (AC)n, (CAA)n, (AAAC)n, (AACAA)n and (AAACAA)n, with frequencies of 97.94%, 58.75%, 30.53%, 22.82%, 54.68% and 22.87%, respectively, while in M. natalensis were (A)n, (AC)n, (TAT)n, (TTTA)n, (AACAA)n and (GAGAGG)n, with of 92.00%, 34.08%, 40.36%, 21.83%, 25.42% and 12.79%, respectively. In both species, the diversity of microsatellites was highest in intergenic regions, followed by intronic, untranslated and exonic regions and lowest in coding regions. Location analysis indicated that microsatellites were mainly concentrated at both ends of the genes. Microsatellites in the CDS are thus subject to higher selective pressure. In the GO analysis, two unique GO terms were found only in P. vampyrus and M. natalensis, respectively. In KEGG enriched pathway, the biosynthesis of other secondary metabolites and metabolism of other amino acids in metabolism pathways were present only in M. natalensis. The combined biological process, cellular components and molecular function ontology are reflected in the GO analysis and six functional enrichments in KEGG annotation, suggesting advantageous mutations during species evolution. Conclusions Our study gives a comparative characterization of the genomes of microsatellites composition in the two bat species. And also allow further study on the effect of microsatellites on gene function as well as provide an insight into the molecular basis for species adaptation to new and changing environments.

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Section: Introductionmentioning

confidence: 99%

Comparison of microsatellite distribution in the genomes of Pteropus vampyrus and Miniopterus natalensis (Chiroptera)

Shao

Wei²,

Qiao³

et al. 2023

BMC Genom Data

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“…This study employed 2 markers: microsatellites and mitochondrial DNA (mtDNA). This is because microsatellites are highly polymorphic and are co-dominantly inherited (Labiros et al 2022), whereas mtDNA have uniparental inheritance (maternal) and does not have recombination (Parakatselaki and Ladoukakis 2021).…”

Section: Introductionmentioning

confidence: 99%

Introgressive hybridization levels of Tilapiines species in Lake Victoria basin, Kenya inferred from microsatellite and mitochondrial DNA genotyping based on next- generation sequencing

Gerald

Thapasya

Tibihika³

et al. 2022

Preprint

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Despite their high abundance and species richness, tilapiines have been compromised by various factors especially overfishing, climate change, and un-controlled fish translocations. Fish translocations have negatively impacted native tilapiine populations through competition, predation, hybridization, and introgression compromising their genetic integrity. The hybridization levels of different tilapiines in the Lake Victoria basin remains an understudied aspect relatively. The study utilized nuclear microsatellite and mitochondrial DNA (mtDNA) genetic markers to investigate hybridization signals and compare the genetic diversity of different tilapiines in Lake Victoria, Kenya, using next-generation sequencing. Low levels of hybridization from Oreochromis niloticus into other Oreochromis species were detected by Bayesian clustering analysis and principal coordinate analysis (PCoA). The results contribute to the need for conservation measures of these fish species.

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Introgressive hybridization levels of Tilapiine species in Lake Victoria basin, Kenya inferred from microsatellite and mitochondrial DNA genotyping based on next-generation sequencing

Kwikiriza,

Vijayan,

Tibihika

et al. 2023

Conserv Genet

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Despite their high abundance and species richness, tilapiines have been compromised by various factors especially overfishing, climate change, and uncontrolled fish transfers and introductions. Fish introductions have negatively impacted native tilapiine populations through competition, predation, hybridization, and introgression compromising their genetic integrity. The hybridization levels of different tilapiines in the Lake Victoria basin remain relatively understudied. The study utilized nuclear microsatellite and mitochondrial DNA (mtDNA) genetic markers to investigate hybridization signals and compare the genetic diversity of different tilapiines in Lake Victoria, Kenya, using next-generation sequencing. Low levels of hybridization from Oreochromis niloticus into other Oreochromis species were detected by Bayesian clustering analysis and principal coordinate analysis (PCoA). The results contribute to the need for conservation measures for these fish species.

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Novel and Broadly Applicable Microsatellite Markers in Identified Chromosomes of the Philippine Dengue Mosquitoes, Aedes aegypti (Diptera: Culicidae)

Cited by 4 publications

References 49 publications

Comparison of microsatellite distribution in the genomes of Pteropus vampyrus and Miniopterus natalensis (Chiroptera)

Comparison of microsatellite distribution in the genomes of Pteropus vampyrus and Miniopterus natalensis (Chiroptera)

Introgressive hybridization levels of Tilapiines species in Lake Victoria basin, Kenya inferred from microsatellite and mitochondrial DNA genotyping based on next- generation sequencing

Introgressive hybridization levels of Tilapiine species in Lake Victoria basin, Kenya inferred from microsatellite and mitochondrial DNA genotyping based on next-generation sequencing

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