A Genome-Wide Analysis of Nuclear Mitochondrial DNA Sequences (NUMTs) in Chrysomelidae Species (Coleoptera) DOI Creative Commons
Yi He, Si‐Qin Ge, Hongbin Liang

et al.

Insects, Journal Year: 2025, Volume and Issue: 16(2), P. 150 - 150

Published: Feb. 2, 2025

Nuclear mitochondrial DNA sequences (NUMTs) are fragments in the nuclear genome, and their unclear distribution Chrysomelidae species hinders selection of accurate molecular markers for identification phylogenetic analysis. Our study presents a genome-wide survey NUMTs 32 species. Filtering strategies based on sequence length open reading frame (ORF) features were employed to identify protein-coding genes (PCGs) minimally affected by NUMTs. Phylogenetic relationships inferred from both PCG datasets COX1 dataset containing results show that chromosomally specific, species-specific, widely distributed. ATP8, COX1, ND1, ND4 identified as relatively reliable markers. analysis is influenced other factors such type saturation. A total 66 independent gene integration events estimated across species, mostly distinct lineages. These findings suggest reflect key evolutionary processes flow lineage diversification. Their prevalence emphasizes need refined analysis, while also highlighting importance understanding contribution species’ history.

Language: Английский

Phylogenetics and Evolutionary Dynamics of Yunnan Acrididae Grasshoppers Inferred from 17 New Mitochondrial Genomes DOI Creative Commons

Keyao Zhang,

Jing Song, Junhui Lu

et al.

Insects, Journal Year: 2025, Volume and Issue: 16(2), P. 151 - 151

Published: Feb. 3, 2025

Yunnan Province, a global biodiversity hotspot, hosts diverse array of Acrididae grasshoppers essential for ecosystem dynamics and agriculture. To elucidate the phylogenetic relationships evolutionary history this group, we sequenced analyzed complete mitochondrial genomes from 17 species endemic to Yunnan, with genome lengths ranging 15,403 15,943 base pairs. These data were integrated sequences 46 additional construct comprehensive trees. The maximum-likelihood tree identified four major clades robust support (bootstrap values > 90%), revealing significant lineage diversification during Early Eocene (51.94 million years ago, Mya) subsequent radiations in Miocene (~20 Pliocene (~5 Mya). divergence times correlate geological events climatic shifts region, such as uplift Tibetan Plateau intensification Asian monsoon. Notably, several within Coptacrinae Oxyinae subfamilies, particularly Pseudodotraulia cornuata Spathosternum prasiniferum, found be polyphyletic, indicating necessity taxonomic revisions. Further cluster analyses codon usage bias genetic distance these revisions Acrididae. This framework underpins conservation strategies aimed at preserving Yunnan’s rich grasshopper informs updates their phylogeny.

Language: Английский

Citations

0
A Genome-Wide Analysis of Nuclear Mitochondrial DNA Sequences (NUMTs) in Chrysomelidae Species (Coleoptera) DOI Creative Commons
Yi He, Si‐Qin Ge, Hongbin Liang

et al.

Insects, Journal Year: 2025, Volume and Issue: 16(2), P. 150 - 150

Published: Feb. 2, 2025

Nuclear mitochondrial DNA sequences (NUMTs) are fragments in the nuclear genome, and their unclear distribution Chrysomelidae species hinders selection of accurate molecular markers for identification phylogenetic analysis. Our study presents a genome-wide survey NUMTs 32 species. Filtering strategies based on sequence length open reading frame (ORF) features were employed to identify protein-coding genes (PCGs) minimally affected by NUMTs. Phylogenetic relationships inferred from both PCG datasets COX1 dataset containing results show that chromosomally specific, species-specific, widely distributed. ATP8, COX1, ND1, ND4 identified as relatively reliable markers. analysis is influenced other factors such type saturation. A total 66 independent gene integration events estimated across species, mostly distinct lineages. These findings suggest reflect key evolutionary processes flow lineage diversification. Their prevalence emphasizes need refined analysis, while also highlighting importance understanding contribution species’ history.

Language: Английский

Citations

0