Karyotype analysis of Rheum palmatum

Ye, J Q; Jia, Yanyan; Fan, Kai; Sun, Xiang; Wang, X M

doi:10.4238/2014.october.31.20

Cited by 5 publications

(4 citation statements)

References 13 publications

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“…1 ; Table 1 and S5). Over 99.9% of the sequences were anchored into 11 pseudochromosomes, consistent with our previous study [ 64 ] and estimates from k -mer frequency method (Figures S1 ). The assembly’s quality was further confirmed by BUSCO and LAI analyses, which showed high coverage of core genes and assembly accuracy (Table 1 ).…”

Section: Resultssupporting

confidence: 90%

“…For subtelomere regions, we set a minimum length requirement (> 20 kb) for the total tandem repeat sequence. Besides, we filtered tandem repeat sequences to determine potential centromere region based on features such as tandem repeat unit (≥ 100 bp), repeat times (≥ 100), and position on the chromosome according to a previous study focusing on R. palmatum [ 64 ].…”

Section: Methodsmentioning

confidence: 99%

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A chromosome-level genome reveals genome evolution and molecular basis of anthraquinone biosynthesis in Rheum palmatum

Zhang,

Zhou,

et al. 2024

BMC Plant Biol

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Background Rhubarb is one of common traditional Chinese medicine with a diverse array of therapeutic efficacies. Despite its widespread use, molecular research into rhubarb remains limited, constraining our comprehension of the geoherbalism. Results We assembled the genome of Rheum palmatum L., one of the source plants of rhubarb, to elucidate its genome evolution and unpack the biosynthetic pathways of its bioactive compounds using a combination of PacBio HiFi, Oxford Nanopore, Illumina, and Hi-C scaffolding approaches. Around 2.8 Gb genome was obtained after assembly with more than 99.9% sequences anchored to 11 pseudochromosomes (scaffold N50 = 259.19 Mb). Transposable elements (TE) with a continuous expansion of long terminal repeat retrotransposons (LTRs) is predominant in genome size, contributing to the genome expansion of R. palmatum. Totally 30,480 genes were predicted to be protein-coding genes with 473 significantly expanded gene families enriched in diverse pathways associated with high-altitude adaptation for this species. Two successive rounds of whole genome duplication event (WGD) shared by Fagopyrum tataricum and R. palmatum were confirmed. We also identified 54 genes involved in anthraquinone biosynthesis and other 97 genes entangled in flavonoid biosynthesis. Notably, RpALS emerged as a compelling candidate gene for the octaketide biosynthesis after the key residual screening. Conclusion Overall, our findings offer not only an enhanced understanding of this remarkable medicinal plant but also pave the way for future innovations in its genetic breeding, molecular design, and functional genomic studies.

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Section: Resultssupporting

confidence: 90%

Section: Methodsmentioning

confidence: 99%

A chromosome-level genome reveals genome evolution and molecular basis of anthraquinone biosynthesis in Rheum palmatum

Zhang,

Zhou,

et al. 2024

BMC Plant Biol

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“…In respect to cent ro mere position karyotype, symmetry can be studied using As K%, intrachromosomal asymmetry index (A1), inter chro mosomal asymmetry index (A2) and degree of asym met ry of karyotypes (A) indices. The high symmetric and more primitive karyotype is depicted by the closer 50 % value of As K% (Ye et al 2014). Accordingly in this investi ga tion, the species has recorded 54.45 and 55.29 % for hypo ploid and diploid complements respectively.…”

Section: R E S U L T S a N D Discussionmentioning

confidence: 76%

A new record of chromosome count in mixoploid karyotype of Strobilanthes hamiltoniana (Steud.) Bosser & Heine (Acanthaceae)

Chembrammal¹,

Thoppil²

2022

Bot Pac

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The mixoploid karyotype found in the garden plant, Strobilanthes hamiltoniana, is a new record of chromosome count to the contemporary knowledge. The detailed karyomorphometrical analysis of the plant revealed a symmetric karyotype which is primitive. A hypoploid variant along with the normal chromosome complement was recorded within a root meristem with karyotype formulae as 10 nm and 20 nm respectively. In the diploid cells two pair of chromosomes have secondary constriction with an average chromosome length of 1.81 μm. The high values of symmetric indices and low values of asymmetric indices proved the primitive nature of the karyotype.

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“…The karyotype asymmetry is the percentage of total chromosome length to the total of the long arm. The resulted values of As K% above 50 are inconsistent to prove the karyotype is considerably symmetric and primitive [29].…”

Section: Discussionmentioning

confidence: 95%

Mixoploidy in Strobilanthes anamallaica J.R.I.Wood (Acanthaceae Juss.) an important taxon of south-western Ghat, India

Chembrammal

Thoppil

2021

Nucleus

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Strobilanthes anamallaica (Acanthaceae) is an endemic plant of South-Western Ghats, Kerala, India. Cytogenetical characterisation from the root meristem revealed exhibition of mixoploidy, i.e. three chromosome counts, 2n = 10, 20 and 30, within the same tissue. Three different euploid linkage sets corresponding to hypoploid, diploid and hyperploid cells could be differentiated. Although it is difficult to ascertain true paired sets, but a close look at the karyomorphology led to deduce karyotype formulae as 2nsm(-) + 8 nm; 2 M + 18 nm; and 30 nm, respectively (nsm = nearly submedian, nm = nearly median, M = median). The centromere position of chromosomes was predominantly nearly median with a few median ones. The karyotype details and incidence of mixoploidy is the first report for this endemic species. The karyotype is symmetric and primitive in nature. Occurrence of mixoploidy is suggested as an adaptation measure for the species.

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Karyotype analysis of Rheum palmatum

Cited by 5 publications

References 13 publications

A chromosome-level genome reveals genome evolution and molecular basis of anthraquinone biosynthesis in Rheum palmatum

A chromosome-level genome reveals genome evolution and molecular basis of anthraquinone biosynthesis in Rheum palmatum

A new record of chromosome count in mixoploid karyotype of Strobilanthes hamiltoniana (Steud.) Bosser & Heine (Acanthaceae)

Mixoploidy in Strobilanthes anamallaica J.R.I.Wood (Acanthaceae Juss.) an important taxon of south-western Ghat, India

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