Candidate gene association of gene expression data in sugarcane contrasting for sucrose content

Khanbo, Supaporn; Tangphatsornruang, Sithichoke; Piriyapongsa, Jittima; Wirojsirasak, Warodom; Klomsa-ard, Peeraya; Ukoskit, Kittipat

doi:10.1016/j.ygeno.2020.12.014

Cited by 9 publications

(13 citation statements)

References 74 publications

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“…Next-generation sequencing (NGS) technology has accelerated the genome sequencing and resequencing of polyploidy crops to determine molecular markers’ genetic and physical mapping in specific loci/genes. These identified markers may be used to conduct molecular marker-assisted selection (MAS) breeding or evaluate the genetic links between different accessions using genotyping technologies to improve agronomic traits. − The evolution of transcriptome sequences has improved gene interpretation by providing insight into the domestication and control of gene function networks via gene expression and sequence patterns ,− for modern breeding and genome editing.…”

Section: Introductionmentioning

confidence: 99%

Impact of Agroclimatic Variables on Proteogenomics in Sugar Cane (Saccharum spp.) Plant Productivity

et al. 2022

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Sugar cane ( Saccharum spp. hybrids) is a major crop for sugar and renewable bioenergy worldwide, grown in arid and semiarid regions. China, the world’s fourth-largest sugar producer after Brazil, India, and the European Union, all share ∼80% of the global production, and the remaining ∼20% of sugar comes from sugar beets, mostly grown in the temperate regions of the Northern Hemisphere, also used as a raw material in production of bioethanol for renewable energy. In view of carboxylation strategies, sugar cane qualifies as one of the best C 4 crop. It has dual CO 2 concentrating mechanisms located in its unique Krantz anatomy, having dimorphic chloroplasts located in mesophylls and bundle sheath cells for integrated operation of C 4 and C 3 carbon fixation cycles, regulated by enzymes to upgrade/sustain an ability for improved carbon assimilation to acquire an optimum carbon economy by producing enhanced plant biomass along with sugar yield under elevated temperature and strong irradiance with improved water-use efficiency. These superior intrinsic physiological carbon metabolisms encouraged us to reveal and recollect the facts for moving ahead with the molecular approaches to reveal the expression of proteogenomics linked with plant productivity under abiotic stress during its cultivation in specific agrizones globally.

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Section: Introductionmentioning

confidence: 99%

Impact of Agroclimatic Variables on Proteogenomics in Sugar Cane (Saccharum spp.) Plant Productivity

et al. 2022

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“…The QTL mapping combined with association studies has been efficiently used to identify candidate genes for traits of interest in annual plants, such as A. thaliana (Brock et al., 2020), rice (Liu et al., 2019) and sugarcane (Khanbo et al., 2021). Similarly, an integrated linkage and association mapping study was used to identify and perform fine mapping of QTLs that control important horticultural traits in perennial fruit trees (Khan et al., 2013).…”

Section: Discussionmentioning

confidence: 99%

Transcriptional repression of MdMa1 by MdMYB21 in Ma locus decreases malic acid content in apple fruit

et al. 2023

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SUMMARYMalic acid is a major organic acid component of apples and a crucial determinant of fruit organoleptic quality. A candidate gene for malic acid content, designated MdMa1, was previously identified in the Ma locus, which is a major quantitative trait locus (QTL) for apple fruit acidity located on the linkage group 16. Region‐based association mapping to detect candidate genes in the Ma locus identified MdMa1 and an additional MdMYB21 gene putatively associated with malic acid. MdMYB21 was significantly associated with fruit malic acid content, accounting for ~7.48% of the observed phenotypic variation in the apple germplasm collection. Analyses of transgenic apple calli, fruits and tomatoes demonstrated that MdMYB21 negatively regulated malic acid accumulation. The apple fruit acidity‐related MdMa1 and its tomato ortholog, SlALMT9, exhibited lower expression profiles in apple calli, mature fruits and tomatoes in which MdMYB21 was overexpressed, compared with their corresponding wild‐type variety. MdMYB21 directly binds to the MdMa1 promoter and represses its expression. Interestingly, a 2‐bp variation in the MdMYB21 promoter region altered its expression and regulation of its target gene, MdMa1, expression. Our findings not only demonstrate the efficiency of integrating QTL and association mapping in the identification of candidate genes controlling complex traits in apples, but also provide insights into the complex regulatory mechanism of fruit malic acid accumulation.

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“…A large number of genes, transcription factors, many known and unknown regulatory factors, such as miRNAs and hormones are involved in sugar metabolism, and starch and sugar accumulation (Wang et al, 2017). Many enzymes and their genes F I G U R E 1 0 Expression levels of genes (left panel) and miRNAs (right panel) by high-throughput sequencing and qRT-PCR involved in sucrose accumulation in sugarcane have been reported (Chen et al, 2016;Grof & Campbell, 2001;Huang et al, 2017;Khanbo et al, 2021;Qin et al, 2021;Thirugnanasambandam et al, 2017;Verma et al, 2019;Wang et al, 2017). MiRNAs are known to regulate numerous growth and development, and metabolic processes in many plants (Chen, Heikkinen, et al, 2019;Saliminejad et al, 2019).…”

Section: Discussionmentioning

confidence: 99%

Control of sucrose accumulation in sugarcane (Saccharum spp. hybrids) involves miRNA‐mediated regulation of genes and transcription factors associated with sugar metabolism

Miao

Liao

et al. 2021

GCB Bioenergy

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Candidate gene association of gene expression data in sugarcane contrasting for sucrose content

Cited by 9 publications

References 74 publications

Impact of Agroclimatic Variables on Proteogenomics in Sugar Cane (Saccharum spp.) Plant Productivity

Impact of Agroclimatic Variables on Proteogenomics in Sugar Cane (Saccharum spp.) Plant Productivity

Transcriptional repression of MdMa1 by MdMYB21 in Ma locus decreases malic acid content in apple fruit

Control of sucrose accumulation in sugarcane (Saccharum spp. hybrids) involves miRNA‐mediated regulation of genes and transcription factors associated with sugar metabolism

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