Investigation of phylogenetic relationships within Saxifraga diversifolia complex (Saxifragaceae) based on restriction‐site associated DNA sequence markers

Ecology and Evolution, Journal Year: 2023, Volume and Issue: 13(11)

Published: Nov. 1, 2023

Abstract Subsect. Hirculoideae Engl. & Irmsch., belonging to Saxifraga sect. Ciliatae Haw., has high species richness. It can be divided into S. diversifolia , pseudohirculus and sinomontana complexes based on morphological characteristics. The with prominent leaf veins the posterior edge were placed in complex, which is mainly distributed eastern southern margins of Qinghai‐Tibetan Plateau. In this study, 53 samples, representing 15 33 described sequenced using Restriction‐site Associated DNA Sequence (RAD‐seq) technique. A total 111,938 high‐quality SNP loci screened investigate phylogenetic relationships within complex. result neighbor‐joining (NJ) tree shows that complex a paraphyletic group. Despite some inconsistencies as revealed by genetic structural analysis, clustering results representative reconstructed both NJ principal component analysis analyses support previous biogeographic evidences. addition, long‐distance gene flow events for 11 taxa detected respectively from implicans 1 2, maxionggouensis nigroglandulifera . These findings may improve our comprehension phylogeny, classification, evolution

Language: Английский

Genetic diversity, population structure, and phylogenetic relationships of a widespread East Asia herb, Cryptotaenia japonica Hassk. (Apiaceae) based on genomic SNP data generated by dd-RAD sequencing

Frontiers in Genetics, Journal Year: 2024, Volume and Issue: 15

Published: Aug. 14, 2024

Single-nucleotide polymorphisms (SNPs) represent the most prevalent form of genomic polymorphism and are extensively used in population genetics research. Using dd-RAD sequencing, a high-throughput sequencing method, we investigated genome-level diversity, structure, phylogenetic relationships among three morphological forms widely distributed taxon Cryptotaenia japonica Hassk., which is native to East Asia. Our study aimed assess species status C. according its genetic structure diversity patterns 66 naturally populations, comprising 26 f. , 36 dissecta (Y. Yabe) Hara 4 pinnatisecta S. L. Liou accessions. Based on SNP data generated by conducted principal component, neighbor-joining (NJ) phylogenetic, admixture clustering, differentiation analyses. The findings revealed following: (1) 5,39,946 unlinked, high-quality SNPs, with mean π H O, E F IS values 0.062, 0.066, 0.043 −0.014, respectively, were generated; (2) divergence was unaffected isolation through distance; (3) six main distinct regions corresponding geographic locations exhibiting various levels identified; (4) pairwise ST analysis showed significant ( P < 0.05) 0%–14% populations after sequential Bonferroni correction; (5) migration events (historical gene flow) indicated east‒west directionality. Moreover, contemporary flow using Jost’s D, Nei’s G Nm highlighted middle latitude area Asia as contributor structuring . Overall, our elucidates relatively low across Asia, further enhancing understanding plant lineage diversification Sino-Japanese Floristic Region.

Language: Английский

The complete plastome of Saxifraga giraldiana Engler and its phylogenetic analysis

Mitochondrial DNA Part B, Journal Year: 2024, Volume and Issue: 9(9), P. 1157 - 1161

Published: Aug. 30, 2024

Saxifraga giraldiana Engler is a common subalpine and alpine plant belonging to Saxifragaceae. However, the genetic diversity of this species has remained be explored. In study, we have assembled characterized complete chloroplast genome S. giraldiana, filling knowledge gap uncovering its composition. The 147,267 bp long contains 131 genes, including 85 protein-coding 38 tRNA eight rRNA genes. Furthermore, performed phylogenetic analysis 19 representative within Saxifraga. As result, found that together with implicans stellariifolia, forms monophyletic group. These findings implications for conservation utilization giraldiana.

Language: Английский