An irregularly striped rind mutant reveals new insight into the function of PG1β in cucumber (Cucumis sativus L.)

Song, Mengfei; Zhang, Mengru; Cheng, Feng; Wei, Qingzhen; Wang, Jing; Davoudi, Marzieh; Chen, Jinfeng; Lou, Qunfeng

doi:10.1007/s00122-019-03468-0

Cited by 14 publications

(11 citation statements)

References 47 publications

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“…In cucurbit crops, a MYC2-like transcription factor MELO3C003412 has been listed as one of the most likely candidates responsible for striped rind in melon (Liu et al 2019). The irregularly stripped rind underlying gene ist in cucumber is predicted to be Csa1G005490, encoding a polygalacturonase-1 noncatalytic subunit beta protein (PG1β) known to be involved in fruit softening (Song et al 2019). Considering the distribution characteristics of stripes on watermelon fruit, we focused on analyzing the transcription factors in the ClSP mapping interval, and obtained seven candidates namely No1 to No7 (Fig.…”

Section: Discussionmentioning

confidence: 99%

“…7; Tables S5, S6). Photosynthesis is reported to be associated with the chloroplast formation and pigments synthesis (Song et al 2019). The down-regulation of photosynthesis related genes can consequently effect the chloroplast thylakoid development.…”

Section: Discussionmentioning

confidence: 99%

“…Among them, the WD40 transcription factor gene Cla97C06G126710 (candidate No2) has been recently identi ed as the best candidate gene for stripe pattern trait in watermelon via GWAS approach (Guo et al 2019). Furthermore, it is worth to note that gene Cla97C06G126560 encoding a polygalacturonase-1 noncatalytic subunit beta protein was referred as candidate No8 in the target region, because it is the ortholog of cucumber ist (Table S3), which is reported to regulate the irregularly striped rind pattern (Song et al 2019). Interestingly, according to nucleotide polymorphisms (SNPs and indels) identi ed in the BSR-seq data, at least four discrete haplotype blocks (haploblocks) were characterized in ClSP locus (Fig.…”

Section: Gene Annotation and Haplotype Block Analysis Of Clsp Locusmentioning

confidence: 99%

“…Similarly, sequence variations of candidate No7 displayed a consistent haplotype in stripe lines 97103 and M08, while no transcript was detected in two pools (stripe and nonstripe pools). As the ortholog of gene ist responsible for the irregularly stripped rind phenotype in cucumber (Song et al 2019), candidate No8 contained three mutant sites in N21 (non-stripe phenotype) contrast to other four genotypes. Moreover, another three heterozygous sites were also con rmed in stripe pool by BSR-seq data and gene cloning assay, with the third variation causing amino acid substitution.…”

Section: Sequence Polymorphic Variations Of Candidate Genesmentioning

confidence: 99%

“…For example, the striped rind dominant gene st3 has been ne mapped in a 172.8 Kb region on chromosome 4 in melon (Liu et al 2019), and gene Cmsp-1 controlling the dominant spotted trait has been located in a 3.94 Mb region on the end of chromosome 2 (Lv et al 2018). In cucumber, gene Csa1G005490 encoding a polygalacturonase-1 noncatalytic subunit beta protein (PG1β) was identi ed as the possible candidate gene for the irregularly striped rind pattern in mutant ist (Song et al 2019). The stripe development in Cucurbit species is also a complex process, which results from the action of multiple genes, such as genes l-1, l-1 Bst , l-1 St , l-1 iSt , and l-2 (Grumet and Colle 2016;Paris 2003Paris , 2009.…”

Section: Introductionmentioning

confidence: 99%

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Candidate gene analysis of watermelon stripe pattern locus ClSP ongoing recombination suppression

Yue

Cheng

et al. 2021

Theor Appl Genet

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Stripe pattern is an important commodity trait in watermelon, displaying diverse types. In this study, two segregating populations were generated for genetic mapping the single dominant locus ClSP, which was nally delimited to a 611.78 Kb interval with suppression of recombination. According to polymorphism sites detected among genotypes, four discrete haploblocks were characterized in this target region. Based on reference genomes, 81 predicted genes were annotated in the ClSP interval, including seven transcription factors namely as candidate No1-No7. Meanwhile, the ortholog gene of cucumber ist responsible for the irregular stripes was considered as candidate No8. Strikingly, gene structures of No1-No5 completely varied from their reference descriptions and subsequently re-annotated. Notably, the adjacent distribution candidates No2 and No3, as well as No4 and No5, were con rmed to derive from longer transcripts designated as No2_3 and No4_5, respectively. Sequence analysis demonstrated the third polymorphism in CDS of re-annotated No4_5 resulting in truncated proteins in non-stripe plants.Furthermore, only No4_5 was down-regulated in non-stripes relative to stripes contrast to other candidates. Transcriptome analysis identi ed 356 DEGs between striped and non-striped peels, with genes involved in photosynthesis and chloroplast development down-regulated in non-stripes but calcium ion binding related genes up-regulated. Additionally, 38 DEGs were annotated as transcription factors, with the majority up-regulated in non-stripes, such as ERFs and WRKYs. This study not only contributes to a better understanding of the molecular mechanisms underlying watermelon stripe development, but also provides new insight into the genomic structure of ClSP locus and valuable candidates.

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Section: Discussionmentioning

confidence: 99%

Section: Discussionmentioning

confidence: 99%

Section: Gene Annotation and Haplotype Block Analysis Of Clsp Locusmentioning

confidence: 99%

Section: Sequence Polymorphic Variations Of Candidate Genesmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

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Candidate gene analysis of watermelon stripe pattern locus ClSP ongoing recombination suppression

Yue

Cheng

et al. 2021

Theor Appl Genet

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Identification of a putative candidate gene encoding 7-dehydrocholesterol reductase involved in brassinosteroids biosynthesis for compact plant architecture in Cucumber (Cucumis sativus L.)

et al. 2021

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A mutation in LacDWARF1 results in a GA-deficient dwarf phenotype in sponge gourd (Luffa acutangula)

Zhao

Luo

et al. 2021

Theor Appl Genet

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Key message A dwarfism gene LacDWARF1 was mapped by combined BSA-Seq and comparative genomics analyses to a 65.4 kb physical genomic region on chromosome 05. Abstract Dwarf architecture is one of the most important traits utilized in Cucurbitaceae breeding because it saves labor and increases the harvest index. To our knowledge, there has been no prior research about dwarfism in the sponge gourd. This study reports the first dwarf mutant WJ209 with a decrease in cell size and internodes. A genetic analysis revealed that the mutant phenotype was controlled by a single recessive gene, which is designated Lacdwarf1 (Lacd1). Combined with bulked segregate analysis and next-generation sequencing, we quickly mapped a 65.4 kb region on chromosome 5 using F2 segregation population with InDel and SNP polymorphism markers. Gene annotation revealed that Lac05g019500 encodes a gibberellin 3β-hydroxylase (GA3ox) that functions as the most likely candidate gene for Lacd1. DNA sequence analysis showed that there is an approximately 4 kb insertion in the first intron of Lac05g019500 in WJ209. Lac05g019500 is transcribed incorrectly in the dwarf mutant owing to the presence of the insertion. Moreover, the bioactive GAs decreased significantly in WJ209, and the dwarf phenotype could be restored by exogenous GA3 treatment, indicating that WJ209 is a GA-deficient mutant. All these results support the conclusion that Lac05g019500 is the Lacd1 gene. In addition, RNA-Seq revealed that many genes, including those related to plant hormones, cellular process, cell wall, membrane and response to stress, were significantly altered in WJ209 compared with the wild type. This study will aid in the use of molecular marker-assisted breeding in the dwarf sponge gourd.

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An irregularly striped rind mutant reveals new insight into the function of PG1β in cucumber (Cucumis sativus L.)

Cited by 14 publications

References 47 publications

Candidate gene analysis of watermelon stripe pattern locus ClSP ongoing recombination suppression

Candidate gene analysis of watermelon stripe pattern locus ClSP ongoing recombination suppression

Identification of a putative candidate gene encoding 7-dehydrocholesterol reductase involved in brassinosteroids biosynthesis for compact plant architecture in Cucumber (Cucumis sativus L.)

A mutation in LacDWARF1 results in a GA-deficient dwarf phenotype in sponge gourd (Luffa acutangula)

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