The impact of major geological events on Chinese flora

Zhou, Zhe‐Kun; Huang, Jian; Ding, Wen-Na

doi:10.17520/biods.2016120

Cited by 22 publications

(18 citation statements)

References 20 publications

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“…However, our study supports several hypotheses about the origin of Curcuma [4]. Based on GBS data, we inferred the earliest appearance of Curcuma in China during the Miocene, a period when large-scale orogenesis and other geological events had an influence on the development and speciation of the flora in this area [27][28]. The interspecific divergence events of Chinese Curcuma occurred in the late Miocene.…”

Section: Phylogeny and Biological Implicationsupporting

confidence: 85%

Application of genotyping-by-sequencing data on inferring the phylogeny of Curcuma (Zingiberaceae) from China

Liang¹,

Yan²,

Deng³

et al. 2019

Preprint

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Background: Genotyping-by-sequencing (GBS), as one of the next generation sequences, has been applied to large scale genotyping in plants, which is poor in morphological differentiation and low in genetic divergence among different species. Curcuma is a significantly medicinal and edible genus. Improvement efforts of phylogenetic relationships and disentangling species are still a challenge due to poor morphology and lack in a reference genome. Result: A high-throughput genomic sequence data which was obtained through GBS protocols was used to investigate the relationships among 8 species with 60 total samples of Curcuma. Through the use of the ipyrad software, 437,061 loci and 997,988 filtered SNPs without reliance upon a reference genome were produced. After quality control (QC) of the filtered SNPs, 1,295 high-quality SNPs were used to clarify the phylogenetic relationships among Curcuma species. Based on these data, a supermatrix approach was used to speculate the phylogeny, and the phylogenetic trees and the relationships were inferred . Conclusions: Varying degrees of support can be explained, as well as the diversification events for Chinese Curcuma. The diversification events showed that the third intense uplift of Qinghai–Tibet Plateau (QTP) and formation of the Hengduan Mountains may speed up Curcuma interspecific divergence in China. The PCA suggested the same topology of the phylogenetic tree. The genetic structure analysis revealed that extensive hybridization may exist in Chinese Curcuma. Additionally, the GBS will be a promising approach for the phylogenetic and systematic study in the future.

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Section: Phylogeny and Biological Implicationsupporting

confidence: 85%

Application of genotyping-by-sequencing data on inferring the phylogeny of Curcuma (Zingiberaceae) from China

Liang¹,

Yan²,

Deng³

et al. 2019

Preprint

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“…Population structure is the result of both present and historical processes, and many factors may change the geographical distributions of plant species (Comes and Kadereit, 1998). Similar to the Quaternary climatic events that caused vegetation changes between southern and northern China (Sun et al, 2000), geological events are critical to the formation and development of the regional flora (Zhe and Jian, 2017; Zhe et al, 2017). In the late Miocene, interspecific divergence events occurred within Chinese Crataegus species.…”

Section: Discussionmentioning

confidence: 99%

Molecular Analysis of Evolution and Origins of Cultivated Hawthorn (Crataegus spp.) and Related Species in China

Zhang

Hayee

et al. 2019

Front. Plant Sci.

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Hawthorn is of high economic value owing to its medicinal properties and health benefits. Crataegus is a member of the Rosaceae family; the genus has a complicated taxonomic history, and several theories on its origin have been proposed. In this study, 53 accessions from seven Crataegus taxa native to China and accessions of exotic Crataegus species (two from Europe and one from North America) were analyzed by specific locus amplified fragment sequencing (SLAF-seq). In total, 933,450 single-nucleotide polymorphisms were identified after filtering and used to investigate the species’ genomic evolution. Phylogenetic trees derived from nuclear simple sequence repeats (SSRs) and SLAF-seq data showed the same topology, in which Crataegus maximowiczii and Crataegus sanguineae formed a closely related cluster that was clearly separated from the cluster composed of Crataegus hupehensis , Crataegus pinnatifida , Crataegus pinnatifida var. major , Crataegus bretschneideri and Crataegus scabrifolia . Phylogenetic and structure analysis indicated that the seven Chinese Crataegus taxa had two separate speciation events. Plants that evolved the southwestern route shared the genepool with the European species, whereas plants along the northeastern route shared the genepool with the North American species. TreeMix genetic analysis revealed that C. bretschneideri may have a hybrid origin. This study provides valuable information on the origins of Chinese Crataegus and suggests an evolutionary model for the main Crataegus species that native to China.

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“…The estimates of divergence indicated that the earliest appearance of Curcuma in China was in the Miocene. In the Miocene, large-scale orogenesis and geological events frequently emerged and influenced the speciation of plants living in QTP area during that times [68]. During the time, the drought climate (the Asian Monsoon) was related to intense uplift of QTP [69,70].…”

Section: Divergence Timementioning

confidence: 99%

Inferring the Phylogeny and Divergence of Chinese Curcuma (Zingiberaceae) in the Hengduan Mountains of the Qinghai–Tibet Plateau by Reduced Representation Sequencing

Liang

Deng

Gao

et al. 2021

Forests

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Clarifying the genetic relationship and divergence among Curcuma L. (Zingiberaceae) species around the world is intractable, especially among the species located in China. In this study, Reduced Representation Sequencing (RRS), as one of the next generation sequences, has been applied to infer large scale genotyping of major Chinese Curcuma species which present little differentiation of morphological characteristics and genetic traits. The 1295 high-quality SNPs (reduced-filtered SNPs) were chosen from 997,988 SNPs of which were detected from the cleaned 437,061 loci by RRS to investigate the phylogeny and divergence among eight major Curcuma species locate in the Hengduan Mountains of the Qinghai–Tibet Plateau (QTP) in China. The results showed that all the population individuals were clustered together within species, and species were obviously separated; the clustering results were recovered in PCA (Principal Component Analysis); the phylogeny was (((((C. Phaeocaulis, C. yunnanensis), C. kwangsiensis), (C. amarissima, C. sichuanensis)), C. longa), (C. wenyujin, C. aromatica)); Curcuma in China originated around ~7.45 Mya (Million years ago) in the Miocene, and interspecific divergence appeared at ca. 4–2 Mya, which might be sped up rapidly along with the third intense uplift of QTP.

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The impact of major geological events on Chinese flora

Cited by 22 publications

References 20 publications

Application of genotyping-by-sequencing data on inferring the phylogeny of Curcuma (Zingiberaceae) from China

Application of genotyping-by-sequencing data on inferring the phylogeny of Curcuma (Zingiberaceae) from China

Molecular Analysis of Evolution and Origins of Cultivated Hawthorn (Crataegus spp.) and Related Species in China

Inferring the Phylogeny and Divergence of Chinese Curcuma (Zingiberaceae) in the Hengduan Mountains of the Qinghai–Tibet Plateau by Reduced Representation Sequencing

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