Genome size variation and evolution in the grape family Vitaceae

Chu, Zhao-Fu; Wen, Jun; Yang, Yongping; Nie, Ze‐Long; Meng, Ying

doi:10.1111/jse.12310

Cited by 24 publications

(21 citation statements)

References 54 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…The steady state in the genome is incurred primarily in ferns compared to angiosperms [37]. Genome expansion has been reported in many plant species [38], such as Arabidopsis [39], and grape [40]. Genome downsizing has been also found in many plant species.…”

Section: Genome Downsizing During Domestication Of Chinese Jujubementioning

confidence: 99%

Genome Size Variation within Species of Chinese Jujube (Ziziphus jujuba Mill.) and Its Wild Ancestor Sour Jujube (Z. acidojujuba Cheng et Liu)

Li-hu

Luo

Liu

et al. 2019

Forests

View full text Add to dashboard Cite

One of the most important attributes of a genome is genome size, which can to a large extent reflect the evolutionary history and diversity of a plant species. However, studies on genome size diversity within a species are still very limited. This study aims to clarify the variation in genome sizes of Chinese jujube and sour jujube, and to characterize if there exists an association between genome sizes and geographical variation. We measured the genome sizes of 301 cultivars of Chinese jujube and 81 genotypes of sour jujube by flow cytometry. Ten fruit traits, including weight, vertical diameter, horizontal diameter, size, total acids, total sugar, monosaccharide, disaccharide, soluble solids, and ascorbic acid were measured in 243 cultivars of Chinese jujube. The estimated genome sizes of Chinese jujube cultivars ranged from 300.77 Mb to 640.94 Mb, with an average of 408.54 Mb, with the highest number of cultivars (20.93%) falling in the range of 334.787 to 368.804 Mb. The genome size is somewhat different with geographical distribution. The results showed weakly significant positive correlation (p < 0.05) between genome size and fruit size, vertical diameter, horizontal diameter, and weight in the Chinese jujube. The estimated sour jujube genome sizes ranged from 346.93 Mb to 489.44 Mb, with the highest number of genotypes (24.69%) falling in the range of 418.185 to 432.436 Mb. The average genome size of sour jujube genotypes is 423.55 Mb, 15 Mb larger than that of Chinese jujube. There exists a high level of variation in genome sizes within both Chinese jujube cultivars and sour jujube genotypes. Genome contraction may have been occurred during the domestication of Chinese jujube. This study is the first large-scale investigation of genome size variation in both Chinese jujube and sour jujube, which has provided useful resources and data for the characterization of genome evolution within a species and during domestication in plants.

show abstract

Section: Genome Downsizing During Domestication Of Chinese Jujubementioning

confidence: 99%

Genome Size Variation within Species of Chinese Jujube (Ziziphus jujuba Mill.) and Its Wild Ancestor Sour Jujube (Z. acidojujuba Cheng et Liu)

Li-hu

Luo

Liu

et al. 2019

Forests

View full text Add to dashboard Cite

show abstract

“…According to the classification by Soltis et al (2003) the C. quadrangularis genome falls within the group of plants with very small genome. The size of the Cissus quadrangularis genome is approximately in the same range as Cissus antarctica and Cissus trifoliata which are tetraploid species (Chu et al, 2018). In addition, its genome is roughly double that of Cissus javana and Cissus rotundifolia which have diploid genomes (Chu et al, 2018).…”

Section: Resultsmentioning

confidence: 99%

“…The sources for clustering data are provided in Table 2. The genome size data used for annotation of repeats for Cissus species has been reported by Chu et al (2018). Plastid repeats are phylogenetically uninformative due to their abundance, which is linked to the photosynthetic dynamics in plant tissues (Dodsworth et al, 2016) and were manually excluded in further analysis.…”

Section: Methodsmentioning

confidence: 99%

“…Karkamkar, Patil & Misra (2010) reported the chromosome numbers of seven Cissus species (2 n = 24, 48). In addition, Chu et al (2018) reported the chromosome numbers for seven other Cissus species (Table 1, 2 n = 24, 40, 48, or 66) and suggested a linear relationship between the chromosome numbers and genome size (1C = 0.37–1.03 pg). These results implicate polyploidization and repetitive element modifications in the expanded genome size in this genus.…”

Section: Introductionmentioning

confidence: 99%

See 1 more Smart Citation

Genome size, chromosome number determination, and analysis of the repetitive elements inCissus quadrangularis

Gichuki

Ma²,

Zhu

et al. 2019

PeerJ

View full text Add to dashboard Cite

Cissus quadrangularis (Vitaceae) is a perennial climber endemic to Africa and is characterized by succulent angular stems. The plant grows in arid and semi-arid regions of Africa especially in the African savanna. The stem of C. quadrangularis has a wide range of applications in both human and animal medicine, but there is limited cytogenetic information available for this species. In this study, the chromosome number, genome size, and genome composition for C. quadrangularis were determined. Flow cytometry results indicated that the genome size of C. quadrangularis is approximately 2C = 1.410 pg. Fluorescence microscopy combined with DAPI stain showed the chromosome numbers to be 2n = 48. It is likely that C. quadrangularis has a tetraploid genome after considering the basic chromosome numbers in Cissus genus (n = 10, 11, or 12). A combination of low-throughput genome sequencing and bioinformatics analysis allowed identification and quantification of repetitive elements that make up about 52% of the C. quadrangularis genome, which was dominated by LTR-retrotransposons. Two LTR superfamilies were identified as Copia and Gypsy, with 24% and 15% of the annotated clusters, respectively. The comparison of repeat elements for C. quadrangularis, Vitis vinifera, and four other selected members in the Cissus genus revealed a high diversity in the repetitive element components, which could suggest recent amplification events in the Cissus genus. Our data provides a platform for further studies on the phylogeny and karyotype evolution in this genus and in the family Vitaceae.

show abstract

“…Five tribes corresponding to the five major clades identified by phylogenetic studies are proposed and discussed: Ampelopsideae J.Wen & Z.L.Nie, Cisseae Rchb., Cayratieae J.Wen & L.M.Lu, Parthenocisseae J.Wen & Z.D.Chen, and Viteae Dumort. Chu et al () determine the genome size of 11 genera and 50 species of Vitales using flow cytometry and investigate the genome‐size evolution of the family. Their results reveal that most of the species examined have relatively small genomes, except those in the tribe Cayratieae which possess large genomes.…”

mentioning

confidence: 99%