Nucleotide substitution rates

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Compositional and mutational rate heterogeneity in mitochondrial genomes and its effect on the phylogenetic inferences of Cimicomorpha (Hemiptera: Heteroptera)

Mitochondrial genome (mt-genome) data can potentially return artefactual relationships in the higher-level phylogenetic inference of insects due to the biases of accelerated substitution rates and compositional heterogeneity. Previous studies based on mt-genome data alone showed a paraphyly of Cimicomorpha (Insecta, Hemiptera) due to the positions of the families Tingidae and Reduviidae rather than the monophyly that was supported based on morphological characters, morphological and molecular combined data and large scale molecular datasets.

13p vibeauty 23-10-2021 8 1 Download

Big data analysis of human mitochondrial DNA substitution models: A regression approach

The examined factors include genes, codon position, a CpG indicator, directionality, nucleotide, amino acid, codon, and context (neighboring nucleotides), in addition to other site based factors. Partitioning a model by a factor’s value results in several sub-models (one for each value), where the likelihoods of the sub-models can be combined to form a score for the entire model. Eventually, the leading models are considered as viable candidates for explaining mtDNA substitution rates.

13p vitzuyu2711 29-09-2021 12 1 Download

Plastome phylogenomic study of Gentianeae (Gentianaceae): Widespread gene tree discordance and its association with evolutionary rate heterogeneity of plastid genes

Plastome-scale data have been prevalent in reconstructing the plant Tree of Life. However, phylogenomic studies currently based on plastomes rely primarily on maximum likelihood inference of concatenated alignments of plastid genes, and thus phylogenetic discordance produced by individual plastid genes has generally been ignored.

15p vijichea2711 28-05-2021 11 1 Download
Association study of single nucleotide polymorphism in Exon 3 of SPAG11B gene with conception rate in Murrah Bulls

Present study was conducted with the objectives to identify single nucleotide polymorphism in sperm associated antigen 11 B(SPAG11B) gene and to analyze association between identified polymorphism with conception rate in Murrah bulls in ICAR-National Dairy Research Institute (NDRI) herd, Karnal. A 373 base pair region covering partial intron 2, exon 3 and partial intron3 of bovine SPAG11 gene was amplified using genomic DNA extracted from eighty six Murrah bulls and genotyped using sequencing and polymerase chain reaction- restriction fragment length polymorphisms (PCR-RFLP) methods.

7p cothumenhmong3 22-02-2020 19 0 Download