The complete chloroplast genome of Salix lindleyana (salicaceae), a plateau plant species

Figures & data

Figure 1. An individual of Salix lindleyana (species reference map was taken by Xin Du and Xiu-Xing zhangin Kangding City, Ganzi Tibetan Autonomous Prefecture, Sichuan Province, China (29°54′18″N, 102°0′7″E). Salix lindleyana is a kind of cushion shrub, which stem prostrate and rooting. Leaves obovate-oblong or obovate-lanceolate, bright green above, glabrous, midrib distinctly concave. Inflorescences ovate, with only a few flowers per inflorescence, born at the tip of the current branch. Bracts broadly ovate, apex rounded, pale purplish-red.

Figure 2. Schematic representation of the plastome features of Salix lindleyana. From the center outward, the first track shows the dispersed repeats. The dispersed repeats consist of direct (D) and palindromic (P) repeats, connected with red and green arcs. The second track shows the long tandem repeats as short blue bars. The third track shows the short tandem repeats or microsatellite sequences as short bars with different colors. The colors, the type of repeat they represent, and the description of the repeat types are as follows. Black: c (complex repeat); green: p1 (repeat unit size = 1); yellow: p2 (repeat unit size = 2); purple: p3 (repeat unit size = 3); blue: p4 (repeat unit size = 4); orange: p5 (repeat unit size = 5); red: p6 (repeat unit size = 6). the small single-copy (SSC), inverted repeat (IRa and IRb), and large single-copy (LSC) regions are shown on the fourth track. The GC content along the genome is plotted on the fifth track. The base frequency at each site along the genome will be shown between the fourth and fifth tracks. The genes are shown on the sixth track. The optional codon usage bias is displayed in the parenthesis after the gene name. Genes are color-coded by their functional classification. The transcription directions for the inner and outer genes are clockwise and anticlockwise, respectively. The functional classification of the genes is shown in the bottom left corner.

Figure 3. Phylogenetic tree of 32Salix species was established with maximum likelihood using the complete chloroplast genome. The cladogram tree was placed in the upper left corner. Number on each node indicated bootstrap support value. The following sequences were used: Salix cupularis (MW307821; Li et al. 2021), Salix magnifica (MG262364; Liu et al. 2020), Salix gordejevii (MW562004; Wei and Li 2021), Salix oreinoma (MF189168; Huang et al. 2017), Salix integra (MT551162; Zhou et al. 2021), Salix hypoleuca (MG262363; unpublished), Salix minjiangensis (MG262365; unpublished), Salix psammophila (MN495627; Lu et al. 2019), Salix sinopurpurea (MW077725; Guo et al. 2021), Salix maizhokunggarensis (MN952983; Ma et al. 2020), Salix suchowensis (MG262365; Wu 2016), Salix viminalis (MN117720; Hu et al. 2019), Salix taoensis (MG262369; unpublished), Salix rehderiana (NC_037427; unpublished), Salix gracilistyla (MK814774; Xi et al. 2019), Salix eriocephala (MT551161; unpublished), Salix koriyanagi (MK120982; Kim et al. 2019), Salix argyracea (MT551159; unpublished), Salix variegate (MN698825; Chen 2020), Salix dasyclados (MT551160; unpublished), Salix rorida (MG262368; unpublished), Salix linearistipularis (MZ018223; ren et al. 2021), Salix arbutifolia (KX781246; unpublished), Salix triandra (MK722343; Wu et al. 2019(a)), Salix paraplesia (MG262366; unpublished), Salix babylonica (MF189167; Huang et al. 2017), Salix tetrasperma (MF189169; Huang et al. 2017), Salix chaenomeloides (MG262362; unpublished), Salix wilsonii (MK603517; Wu et al. 2019(b)), Salix interior (KJ742926; Huang et al. 2014).

Li J, Zhuo Z, Xu D, Yang H, Zhu T. 2021. The complete chloroplast genome of Salix cupularis Rehder, a sand binder in alpine hillslope. China. Mitochondrial DNA Part B Resour. 6(9):2519–2520. doi: 10.1080/23802359.2021.1959435.

 PubMed Web of Science ®Google Scholar

Liu J, Liu S, Wang R, Guan S, Qu J. 2020. Characterization of the complete chloroplast genome of Salix magnifica, a vulnerable species endemic to China. Mitochondrial DNA Part B Resour. 25(3):2269–2270. doi: 10.1080/23802359.2019.1710602.

 Google Scholar

Wei Y, Li X. 2021. Characterization of the complete chloroplast genome of Salix gordejevii (Salicaceae). Mitochondrial DNA Part B Resour. 6(9):2510–2511. doi: 10.1080/23802359.2021.1959438.

 PubMed Web of Science ®Google Scholar

Huang Y, Wang J, Yang Y, Fan C, Chen J. 2017. Phylogenomic Analysis and Dynamic Evolution of Chloroplast Genomes in Salicaceae. Front Plant Sci. 8:1050. doi: 10.3389/fpls.2017.01050.

 PubMed Web of Science ®Google Scholar

Zhou J, Jiao Z, Guo J, et al. 2021. Complete chloroplast genome sequencing of five Salix species and its application in the phylogeny and taxonomy of the genus, Mitochondrial DNA Part B. 6(8): 2348–2352.

 PubMed Web of Science ®Google Scholar

Lu D, Hao L, Huang H, Zhang G. 2019. The complete chloroplast genome of Salix psamaphila, a desert shrub in northwest China. Mitochondrial DNA Part B Resour. 4(2):3432–3433. doi: 10.1080/23802359.2019.1675485.

 PubMed Web of Science ®Google Scholar

Guo F, Liu K, Wang Y, Li E, Zhan Z, Zhang Z. 2021. Complete chloroplast genome sequence of Salix sinopurpurea (Salicaceae). Mitochondrial DNA B Resour. 116(3):718–719. doi: 10.1080/23802359.2020.1858726.

 Google Scholar

Ma R, Zhou M, Wang Y, Zhu G, Li J, Feng Q, Miao N. 2020. Characterization of the complete chloroplast genome of Salix maizhokunggarensis (Salicaceae). Mitochondrial DNA Part B Resour. 35(1):1054–1055. doi: 10.1080/23802359.2020.1721374.

 Google Scholar

Wu Z. 2016. The whole chloroplast genome of shrub willows (Salix suchowensis). Mitochondrial DNA Part A DNA Mapp Seq Anal. 27(3):2153–2154.

 PubMed Web of Science ®Google Scholar

Hu H-L, Lin H, Chen X-H, Liu Y-Q, Qin L. 2019. The complete chloroplast genome sequence of Salix viminalis (Salicaceae). Mitochondrial DNA Part B Resour. 184(2):3035–3036. doi: 10.1080/23802359.2019.1666041.

 Google Scholar

Xi H, Park J, Kim Y. 2019. The complete chloroplast genome sequence of rose-gold pussy willow, Salix gracilistylaMiq. (Salicaceae). Mitochondrial DNA Part B Resour. 104(2):2118–2120. doi: 10.1080/23802359.2019.1623115.

 Google Scholar

Kim J, Kim Y, Park J. 2019. Complete chloroplast genome sequence of the Salix koriyanagi Kimura ex Goerz (Salicaceae). Mitochondrial DNA Part B: res. 4(1):549–550. doi: 10.1080/23802359.2018.1553521.

 Web of Science ®Google Scholar

Chen J. 2020. Characterization of the complete chloroplast genome of Salix variegata (Salicaceae). Mitochondrial DNA Part B Resour. 125(1):196–197. doi: 10.1080/23802359.2019.1698989.

 Google Scholar

Wu D, Wang Y, Zhang L, Dou L, Gao L. 2019a. The complete chloroplast genome and phylogenetic analysis of Salix triandra from China. Mitochondrial DNA Part B Resour. 154(2):3571–3572. doi: 10.1080/23802359.2019.1674743.

 Google Scholar

Wu D, Wang Y, Zhang L. 2019b. The complete chloroplast genome sequence of an economic plant Salix wilsonii. Mitochondrial DNA Part B Resour. 154(2):3560–3562. doi: 10.1080/23802359.2019.1668311.

 Google Scholar

Huang DI, Hefer CA, Kolosova N, Douglas CJ, Cronk QCB. 2014. Whole plastome sequencing reveals deep plastid divergence and cytonuclear discordance between closely related balsam poplars, Populus balsamifera and P. trichocarpa (Salicaceae). New Phytol. 204(3):693–703. doi: 10.1111/nph.12956.

 PubMed Web of Science ®Google Scholar

Data availability statement

The genome sequence data that support the findings of this study are openly available in the GenBank of NCBI at https://www.ncbi.nlm.nih.gov under the accession number OM892926. The associated BioProject, SRA, and Bio-Sample numbers are PRJNA835694, SRR19116050, and SAMN28108208 respectively.