Complete chloroplast genome sequence of turnip (<i>Brassica rapa</i>. ssp. <i>rapa</i>): genome structure and phylogenetic analysis

Han, Rui; Tian, Minyu; Zhang, Guangnan; Shao, Dengkui; Ren, Yudong

doi:10.1080/23802359.2020.1829124

Cited by 7 publications

(6 citation statements)

References 15 publications

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“…( 2020 ), Han et al. ( 2020 ), and mitochondrial genome studies by Xue et al. ( 2020 ), which suggest that B. juncea was maternally derived from B. rapa , thus confirming zicaitai as a variety of B. rapa .…”

Section: Discussionmentioning

confidence: 89%

The complete chloroplast genome of Brassica rapa var. purpuraria (L.H.Bailey) Kitam 1950 and its phylogenetic analysis

Zhou,

Ren,

Zhang

et al. 2024

Mitochondrial DNA Part B

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Zicaitai ( Brassica rapa var. purpuraria (L.H.Bailey) Kitam 1950) is a vegetable crop that boasts a high nutritional value and unique flavor. It originated from Central China and was formed after long-term cultivation and domestication. In this study, we obtained the complete sequence of the chloroplast genome of zicaitai, a circular molecule of 153,483 bp in length. This chloroplast genome consists of a large single-copy (LSC) region (83,282 bp), a small single-copy (SSC) region (17,775 bp), and a pair of inverted repeats (IRs) (26,213 bp). By sequence annotation, 132 genes, including 87 protein-coding genes, 37 tRNA genes, and eight rRNA genes were identified in the zicaitai chloroplast. A total of 315 simple sequence repeats (SSRs) were found located in LSC (197), SSC (72), and IR (46), respectively. Phylogenetic analysis based on chloroplast genomes indicated the relationship of zicaitai and the Brassicaceae family, which supports zicaitai as a variety of B. rapa in taxonomy. The results obtained in this study provide insight into further research on Brassica chloroplasts and their phylogeny.

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Section: Discussionmentioning

confidence: 89%

The complete chloroplast genome of Brassica rapa var. purpuraria (L.H.Bailey) Kitam 1950 and its phylogenetic analysis

Zhou,

Ren,

Zhang

et al. 2024

Mitochondrial DNA Part B

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“…rapa (NC_049891) (Han et al. 2020 ), Cardamine abchasica (NC_060863) (Ru et al. 2020 ) , Cardamine amara (NC_036962) (Dann et al.…”

Section: Resultsmentioning

confidence: 99%

Characterization of the complete plastome sequence of Korean endemic, Cardamine glechomifolia H.Lév. (Brassicaceae, Brassicales)

Jo,

Kim,

Yun

et al. 2024

Mitochondrial DNA Part B

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In this study, we report the complete plastome sequence of Cardamine glechomifolia H.Lév. 1913 (NCBI acc. no. OP894664). This plastome shows typical quadripartite structure. The plastome size is 154,307 bp, which consists of 84,015 bp large single-copy (LSC), 17,690 bp small single-copy (SSC), and 26,301 bp inverted repeat (IR) regions. The plastome contains 112 genes, including 78 protein-coding, 30 tRNA, and four rRNA genes. The inf A gene is pseudogenized. Sixteen genes contain one intron and two genes ( clp P and ycf 3) have two introns. The phylogenomic analysis conducted in our study reveals that the genus Cardamine , which encompasses C. glechomifolia , exhibits three distinct clades. In order to elucidate the interrelationship among the three clades, it is imperative to conduct additional investigations by augmenting the number of Cardamine samples.

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“…At the genomic level, the results of the phylogenetic relationship of the chloroplast and mitochondrial genome of turnip showed that turnip is closely related to B . rapa [ 52 , 53 ]. Results of homologous sequence alignment in this study may provide a new insight into the root development of B .…”

Section: Resultsmentioning

confidence: 99%

Transcriptomics Integrated with Metabolomics Unveil Carotenoids Accumulation and Correlated Gene Regulation in White and Yellow-Fleshed Turnip (Brassica rapa ssp. rapa)

Ren

Han

et al. 2022

Genes

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Turnip (Brassica rapa ssp. rapa) is considered to be a highly nutritious and health-promoting vegetable crop, whose flesh color can be divided into yellow and white. It is widely accepted that yellow-fleshed turnips have higher nutritional value. However, reports about flesh color formation is lacking. Here, the white-fleshed inbred line, W21, and yellow-fleshed inbred line, W25, were profiled from the swollen root of the turnip at three developmental periods to elucidate the yellow color formation. Transcriptomics integrated with metabolomics analysis showed that the PSY gene was the key gene affecting the carotenoids formation in W25. The coding sequence of BrrPSY-W25 was 1278 bp and that of BrrPSY-W21 was 1275 bp, and BrrPSY was more highly expressed in swollen roots in W25 than in W21. Transient transgenic tobacco leaf over-expressing BrrPSY-W and BrrPSY-Y showed higher transcript levels and carotenoids contents. Results revealed that yellow turnip formation is due to high expression of the PSY gene rather than mutations in the PSY gene, indicating that a post-transcriptional regulatory mechanism may affect carotenoids formation. Results obtained in this study will be helpful for explaining the carotenoids accumulation of turnips.

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Complete chloroplast genome sequence of turnip (Brassica rapa. ssp. rapa): genome structure and phylogenetic analysis

Abstract: Complete chloroplast genome sequence of turnip (Brassica rapa. ssp. rapa): genome structure and phylogenetic analysis

Cited by 7 publications

References 15 publications

The complete chloroplast genome of Brassica rapa var. purpuraria (L.H.Bailey) Kitam 1950 and its phylogenetic analysis

The complete chloroplast genome of Brassica rapa var. purpuraria (L.H.Bailey) Kitam 1950 and its phylogenetic analysis

Characterization of the complete plastome sequence of Korean endemic, Cardamine glechomifolia H.Lév. (Brassicaceae, Brassicales)

Transcriptomics Integrated with Metabolomics Unveil Carotenoids Accumulation and Correlated Gene Regulation in White and Yellow-Fleshed Turnip (Brassica rapa ssp. rapa)

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