A chromosome-level genome assembly of Amorphophallus konjac provides insights into konjac glucomannan biosynthesis

Gao, Yong; Zhang, Yanan; Chen, Feng; Chu, Honglong; Feng, Chao; Wang, Haibo; Wu, Lifang; Yin, Sheng; Liu, Chao; Chen, Huanhuan; Li, Zhumei; Zou, Zhengrong; Tang, Lizhou

doi:10.1016/j.csbj.2022.02.009

Cited by 15 publications

(11 citation statements)

References 46 publications

(54 reference statements)

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“…A. konjac also is an important economic crop widely used in health products and biomaterials because of its tuber contains a large amount of konjac glucomannan (KGM) (Gao et al. 2022 ). The high quality and purity of KGM obtained from A. konjac makes this species the first most cultivated Amophophallus species in China, especially in Yunnan, Guizhou, and Hubei (Sun et al.…”

Section: Introductionmentioning

confidence: 99%

The complete chloroplast genome sequence of Amorphophallus konjac (Araceae) from Yunnan, China and its phylogenetic analysis in the family Araceae

Li,

Qi,

Gao

et al. 2024

Mitochondrial DNA Part B

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This work determined and analyzed the complete chloroplast genome sequence of Amorphophallus konjac K. Koch ex N.E.Br 1858 from Yunnan, China. The genome size was 167,470 bp, of which contains a large single-copy region (LSC 93,443 bp), a small single-copy region (SSC 21,575 bp), and a pair of inverted repeat regions (IR 26,226 bp). The chloroplast genome has 131 genes, including 86 protein-coding genes, 37 tRNAs, and eight rRNAs. A previous study reported deletion of acc D, psb E, and trn G-GCC genes in the A. konjac chloroplast genome. Our study supports the conservative structure of A. konjac and does not support the gene deletion mentioned above. Phylogenetic analysis indicated that A. konjac shares a close relationship with another A. konjac (collected from Guizhou) and A. titanium by forming a clade in the genus Amorphophallus . Our results provide some useful information to the evolution of the family Araceae.

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Section: Introductionmentioning

confidence: 99%

The complete chloroplast genome sequence of Amorphophallus konjac (Araceae) from Yunnan, China and its phylogenetic analysis in the family Araceae

Li,

Qi,

Gao

et al. 2024

Mitochondrial DNA Part B

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“…Therefore, we sequenced the whole genome of A. konjac , and the data was submitted to the NCBI database in 2020. Although Gao et al subsequently provided a high-quality chromosome-level genome of A. konjac 22 , our results can also enrich the genomic information of Amorphophallus to a certain extent. In this study, we performed a series of genomic analyses on A. konjac including assembly, annotations, identification of phylogenetic relationship, gene family analysis, divergence time estimation.…”

Section: Introductionmentioning

confidence: 78%

“…Therefore, the high expression of GBE1 in leaf may be related to the synthesis of starch through photosynthesis.In addition, 59 putative genes involved in www.nature.com/scientificreports/ the pathway wrere identified (Fig. 4) according the previous studies on glucomannan biosynthesis 22,33 , and most of them also were highly expressed in fibre and tubers.…”

Section: Tuber Formation and Development Genesmentioning

confidence: 99%

Characteristics of Amorphophallus konjac as indicated by its genome

Li,

Yang,

Wei

et al. 2023

Sci Rep

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Amorphophallus konjac, belonging to the genus Amorphophallus of the Araceae family, is an economically important crop widely used in health products and biomaterials. In the present work, we performed the whole-genome assembly of A. konjac based on the NovaSeq platform sequence data. The final genome assembly was 4.58 Gb with a scaffold N50 of 3212 bp. The genome includes 39,421 protein-coding genes, and 71.75% of the assemblies were repetitive sequences. Comparative genomic analysis showed 1647 gene families have expanded and 2685 contracted in the A. konjac genome. Likewise, genome evolution analysis indicated that A. konjac underwent whole-genome duplication, possibly contributing to the expansion of certain gene families. Furthermore, we identified many candidate genes involved in the tuber formation and development, cellulose and lignification synthesis. The genome of A. konjac obtained in this work provides a valuable resource for the further study of the genetics, genomics, and breeding of this economically important crop, as well as for evolutionary studies of Araceae family.

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“…Development in sequencing technologies has created an opportunity to uncover genomic variations from nonmodel organisms. Recently, the first genome assembly in the Amorphophallu s genus ( A. konjac ) has been reported, which provides valuable genomic resources for inferring the evolutionary and adaptation mechanisms of Amorphophallu s (Gao et al., 2022 ). However, species in the Amorphophallus genus have large genomes (3.70–15.48 Gb), so reduced‐representation library sequencing is a more effective technology for such taxa than whole‐genome sequencing (Gargiulo et al., 2021 ; Tao et al., 2021 ).…”

Section: Introductionmentioning

confidence: 99%

Genomic insights into differentiation and adaptation of Amorphophallus yunnanensis in the mountainous region of Southwest China

Gao,

Dai,

Wang

et al. 2024

Ecology and Evolution

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The role of geographical isolation and environmental adaptation in driving the differentiation and radiation of species has been a hotspot in evolutionary biology. The extremely complicated and fragmented geography of the mountainous region of Southwest China provides an excellent system for investigating the process of species divergence in heterogeneous habitats. Amorphophallus yunnanensis is a species of extreme habitat preference that resides mainly in the mountainous region of Southwest China. Here, we used restriction site‐associated DNA sequencing (RAD‐seq) to characterize the geographic pattern of genetic variation among 19 populations of A. yunnanensis as well as the genomic basis of environmental adaptation. A pattern of low population genetic diversity and high level of genetic differentiation was observed. The genomic data revealed a clear east–west genetic differentiation, with two distinct genetic lineages corresponding to the Guizhou plateau and Yunnan plateau, respectively. However, we discovered demographic expansion of the Guizhou Plateau lineage and recent hybridization in populations at the contact region. Significant levels of isolation by distance along with isolation by environment were detected. Outlier tests and genome–environment association analyses identified 89 putatively adaptive loci that might play a role in environmental adaptation. Our results suggest that the genetic divergence of A. yunnanensis is attributed to geographical isolation together with divergent selection in the mountainous region of Southwest China.

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A chromosome-level genome assembly of Amorphophallus konjac provides insights into konjac glucomannan biosynthesis

Cited by 15 publications

References 46 publications

The complete chloroplast genome sequence of Amorphophallus konjac (Araceae) from Yunnan, China and its phylogenetic analysis in the family Araceae

The complete chloroplast genome sequence of Amorphophallus konjac (Araceae) from Yunnan, China and its phylogenetic analysis in the family Araceae

Characteristics of Amorphophallus konjac as indicated by its genome

Genomic insights into differentiation and adaptation of Amorphophallus yunnanensis in the mountainous region of Southwest China

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