New Insights Into the Phylogeny and Speciation of Kumquat (Fortunella Spp.) Based on Chloroplast Snp, Nuclear SSR and Whole-Genome Sequencing

Zhu, Chenqiao; Chen, Peng; YE, Junli; Li, Hang; Huang, Yue; Yang, Xiaoming; CHEN, Chuanwu; ZHANG, Chenglei; Xu, Yuantao; WANG, Xiaoli; Xiang, Yan; Deng, Guang-Zhou; Jiang, Xiaolin; Wang, Nan; WANG, Hongxing; Sun, Quan; Liu, Yun; Feng, Di; Yu, Min; Song, Xietian; Xie, Zongzhou; Zeng, Yunliu; Chai, Lijun; Xu, Qiang; Deng, Chong-Ling; Cheng, Yunjiang; Deng, Xiuxin

doi:10.15302/j-fase-2021436

Cited by 6 publications

(8 citation statements)

References 29 publications

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“…Zhu et al suggested that the genus Fortunella consisted of two populations: cultivated kumquat and Hongkang (wild) kumquat [16]. The results of this study revealed that the kumquat germplasm was divided into wild and cultivated kumquat groups in Principal Coordinate Analysis (PC1) and Population Structure Analysis (at K = 2).…”

Section: Discussionmentioning

confidence: 71%

“…In the studies on germplasm diversity, principal coordinate analysis, structural analysis, and UPGMA cluster analysis are often utilized to carry out data analysis [16,29]. In the present work, the SRAP data of 26 kumquat genotypes were analyzed by using these three methods.…”

Section: Discussionmentioning

confidence: 99%

“…Zhu et al found that there was a clear genetic structure of "F. margarita-F. crassifolia" in cultivated kumquats. The Luowen may have originated from a cross or backcross between Luofu and Jindan, but all three cultivated species deserved the status of "species" [16]. After the analyses by RAPD and CAPs of chloroplasts, Yasuda et al suggested that the three cultivated kumquat species should be combined into one species (F. margarita complex) [14].…”

Section: Discussionmentioning

confidence: 99%

“…Zhu et al analyzed the genetic diversity and phylogeny of 38 kumquat accessions using 46 nuclear SSR and 5 chloroplast loci, and their results suggested that kumquat contained 2 major populations: cultivated kumquat [Luofu (F. margarita), Luowen (F. japonica), and Jindan (F. crassifolia)] and wild kumquat (Hongkong wild kumquat). They further indicated that Luowen originated from the cross or backcross between Luofu and Jindan, but all three deserved the status of "species" [16]. SSR clustering results supported the position of Changshou kumagat as a species [17].…”

Section: Introductionmentioning

confidence: 89%

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Genetic Diversity Analysis of Guangxi Kumquat (Fortunella Swing) Germplasm Using SRAP Markers

Liu

Ding

et al. 2023

Horticulturae

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In order to understand the genetic diversity of germplasm resources of kumquats in Guangxi, 14 kumquat germplasm resources in Guangxi and 12 accessions from other provinces were analyzed by using SRAP markers. In total, 19 primer pairs with high stability, good reproducibility, and high polymorphism were chosen for analysis of all 26 kumquat genotypes. Among the 104 amplified bands, 90 (86.54%) were polymorphic. SRAP markers were analyzed by employing Principal Coordinate Analysis, Population Structure Analysis, and Hierarchical Cluster Analysis (UPGMA). The classification results showed that the 26 kumquat germplasm resources could be divided into 5 groups, including cultivated kumquat, intergeneric hybrid, wild kumquat from other provinces, wild kumquat, and hybrid kumquat from Guangxi. The Guangxi kumquat germplasm had high genetic diversity, and were clearly divided into three groups: cultivated kumquat, wild kumquat, and hybrid kumquat. Additionally, the eight cultivated kumquat varieties in Guangxi were further divided into two subgroups. Wild kumquat in Guangxi or in other provinces belonged to different groups; meanwhile, the Guangxi kumquat hybrid formed an independent group, thus indicating that Guangxi wild kumquat and hybrid kumquat possess certain specificity, or they possibly belong to different species. Among the tested 26 kumquat accessions, 23 unique genotype-specific SRAP markers were detected for 14 kumquat genotypes, which were positively identified. For the remaining 12 accessions without genotype-specific markers, they were distinguished by various combinations of markers. These results may have certain importance for kumquat genetic research and cultivar selection.

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Section: Discussionmentioning

confidence: 71%

Section: Discussionmentioning

confidence: 99%

Section: Discussionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 89%

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Genetic Diversity Analysis of Guangxi Kumquat (Fortunella Swing) Germplasm Using SRAP Markers

Liu

Ding

et al. 2023

Horticulturae

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“…For apomicts, collected 1–2 samples in each local region to avoid somatic samples. The 24 apomictic wild kumquats were identified and collected from Guangdong, Jiangxi, Hunan, Fujian and Zhejiang Provinces [ 27 , 28 ]. The 30 sexually reproducing wild kumquats were identified and collected from Guangdong and Fujian Provinces including the 14 newly sequenced diploid samples from Shenzhen, Guangdong Province.…”

Section: Methodsmentioning

confidence: 99%

Genomic conservation of crop wild relatives: A case study of citrus

Wang,

Cao,

Liu

et al. 2023

PLoS Genet

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Conservation of crop wild relatives is critical for plant breeding and food security. The lack of clarity on the genetic factors that lead to endangered status or extinction create difficulties when attempting to develop concrete recommendations for conserving a citrus wild relative: the wild relatives of crops. Here, we evaluate the conservation of wild kumquat (Fortunella hindsii) using genomic, geographical, environmental, and phenotypic data, and forward simulations. Genome resequencing data from 73 accessions from the Fortunella genus were combined to investigate population structure, demography, inbreeding, introgression, and genetic load. Population structure was correlated with reproductive type (i.e., sexual and apomictic) and with a significant differentiation within the sexually reproducing population. The effective population size for one of the sexually reproducing subpopulations has recently declined to ~1,000, resulting in high levels of inbreeding. In particular, we found that 58% of the ecological niche overlapped between wild and cultivated populations and that there was extensive introgression into wild samples from cultivated populations. Interestingly, the introgression pattern and accumulation of genetic load may be influenced by the type of reproduction. In wild apomictic samples, the introgressed regions were primarily heterozygous, and genome-wide deleterious variants were hidden in the heterozygous state. In contrast, wild sexually reproducing samples carried a higher recessive deleterious burden. Furthermore, we also found that sexually reproducing samples were self-incompatible, which prevented the reduction of genetic diversity by selfing. Our population genomic analyses provide specific recommendations for distinct reproductive types and monitoring during conservation. This study highlights the genomic landscape of a wild relative of citrus and provides recommendations for the conservation of crop wild relatives.

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Citrus essential oils as biologically active substances in the human health preventive care

Dmitrieva,

Dmitriev,

Sushkova

et al. 2024

BIO Web Conf.

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The work is devoted to the comparative analysis of the component composition of the essential oil of some species of the genus Citrus of different origin. Essential oil was extracted from the peel of kumquat (Citrus japonica Thunb.), lime (Citrus aurantifolia (Christm.) Swingle), and limequat (Citrus x floridana (J.W. Ingram & H.E. Moore) Mabb.) fruits by steam distillation using a modified Ginzberg receiver. The component composition of the essential oil has been established by the GC-MS method. In the studied species of the genus Citrus, the content of the main component of limonene varies from 50 to 95%. Differences are observed in the quantitative ratio of some components that relate to terpene hydrocarbons, alcohols, and their esters.

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New Insights Into the Phylogeny and Speciation of Kumquat (Fortunella Spp.) Based on Chloroplast Snp, Nuclear SSR and Whole-Genome Sequencing

Cited by 6 publications

References 29 publications

Genetic Diversity Analysis of Guangxi Kumquat (Fortunella Swing) Germplasm Using SRAP Markers

Genetic Diversity Analysis of Guangxi Kumquat (Fortunella Swing) Germplasm Using SRAP Markers

Genomic conservation of crop wild relatives: A case study of citrus

Citrus essential oils as biologically active substances in the human health preventive care

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