A Large-Scale Genomic Association Analysis Identifies the Candidate Genes Regulating Salt Tolerance in Cucumber (Cucumis sativus L.) Seedlings

Liu, Dongrang; Dong, Shuang-Lin; Han, Moonsik; Li, Xiaoping; Li, Caixia; Han, Ji; Zhang, Shengping; Gu, Xingfang

doi:10.3390/ijms23158260

Cited by 6 publications

(3 citation statements)

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“…Primer design was carried out using Primer 3.0 software (version 3; San Francisco, CA, USA) (Table 2). The qRT-PCR was operated with SYBR Green kit (Tiangen Biotech, Beijing, China), following the methods detailed by Liu et al [32]. Relative gene expression data analysis was performed using the 2 −∆∆Ct method [33].…”

Section: Rna Extraction and Qrt-pcr Verificationmentioning

confidence: 99%

Screening and Identification of Saline-Tolerant Germplasm in Melon

Yang,

Ling,

et al. 2023

Agriculture

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Melon (Cucumis melo L.) holds significant importance as a horticultural crop, but it faces several yield-limiting factors, including salinity stress. While salinity traditionally hampers the vegetative growth of melon and detrimentally impacts fruit development and quality, certain melon cultivars exhibit the ability to flourish in conditions of relatively high soil salinity. However, truly salt-tolerant melon varieties are quite rare. In this article, we conducted seedling indoor tests, assessed morphological, physiological and biochemical indices, and explored different salt tolerance types among five melon varieties. As a result, we identified three salt-tolerant varieties, with ‘kuizilike’ (KLK) demonstrating the most impressive performance under salt stress. ‘KLK’ exhibited minimal growth and development constraints during salt stress, with the lowest Na+ content, the highest K+ content, and the highest K+/Na+ ratio. Moreover, it displayed the lowest content of malondialdehyde, the highest concentrations of osmoregulation substances, and the highest activity of antioxidant enzymes. Real-time fluorescence quantitation PCR results revealed significantly elevated gene expression levels of TPK, NHX2, LTP, POD, SuSy, HK, PRP and P5CR in ‘KLK’ compared to other varieties. These newly identified salt-tolerant melon germplasms will serve as valuable genetic resources for future studies on the mechanisms underlying melon salt tolerance, and provide insights into melon improvement and molecular breeding.

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Section: Rna Extraction and Qrt-pcr Verificationmentioning

confidence: 99%

Screening and Identification of Saline-Tolerant Germplasm in Melon

Yang,

Ling,

et al. 2023

Agriculture

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“…(2019) detected five LT-tolerance loci ( gLTS1.1, gLTS3.1 , gLTS4.1 and gLTS5.1 ) on Chr.1, Chr.3, Chr.4 and Chr.5, respectively using low temperature injury indices. Seven loci ( gST2.1 , gST3.1 , gST4.1 , gST4.2, gST5.1, gST6.1) associated with salt tolerance in cucumber seedlings were repeatedly detected ( Liu et al., 2022a ). For quality traits, the ultra-high fruit spine density formation genes ( fsd6.2 ) ( Bo et al., 2019a ) and the green flesh formation gene ( qgf5.1 and qgf3.1 ) ( Bo et al., 2019b ) were identified using a group of 115 cucumber accessions from a core germplasm collection.…”

Section: Introductionmentioning

confidence: 99%

GWAS reveals novel loci and identifies a pentatricopeptide repeat-containing protein (CsPPR) that improves low temperature germination in cucumber

Dong

Beckles

et al. 2023

Front. Plant Sci.

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Low temperatures (LTs) negatively affect the percentage and rate of cucumber (Cucumis sativus L.) seed germination, which has deleterious effects on yield. Here, a genome-wide association study (GWAS) was used to identify the genetic loci underlying low temperature germination (LTG) in 151 cucumber accessions that represented seven diverse ecotypes. Over two years, phenotypic data for LTG i.e., relative germination rate (RGR), relative germination energy (RGE), relative germination index (RGI) and relative radical length (RRL), were collected in two environments, and 17 of the 151 accessions were found to be highly cold tolerant using cluster analysis. A total of 1,522,847 significantly associated single-nucleotide polymorphism (SNP) were identified, and seven loci associated with LTG, on four chromosomes, were detected: gLTG1.1, gLTG1.2, gLTG1.3, gLTG4.1, gLTG5.1, gLTG5.2, and gLTG6.1 after resequencing of the accessions. Of the seven loci, three, i.e., gLTG1.2, gLTG4.1, and gLTG5.2, showed strong signals that were consistent over two years using the four germination indices, and are thus strong and stable for LTG. Eight candidate genes associated with abiotic stress were identified, and three of them were potentially causal to LTG: CsaV3_1G044080 (a pentatricopeptide repeat-containing protein) for gLTG1.2, CsaV3_4G013480 (a RING-type E3 ubiquitin transferase) for gLTG4.1, and CsaV3_5G029350 (a serine/threonine-protein kinase) for gLTG5.2. The function for CsPPR (CsaV3_1G044080) in regulating LTG was confirmed, as Arabidopsis lines ectopically expressing CsPPR showed higher germination and survival rates at 4°C compared to the wild-type, which preliminarily illustrates that CsPPR negatively regulates cucumber cold tolerance at the germination stage. This study will provide insights into cucumber LT-tolerance mechanisms and further promote cucumber breeding development.

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“…Compared with molecular markers used in conventional gene/QTL mapping, genomic sequencing-based genotyping is a more convenient and effective alternative. Liu et al conducted Genome-Wide Association Studies (GWASs) by re-sequencing 220 cucumber core accessions and found that a total of seven loci were associated with salt tolerance in cucumber seedlings and finally predicted five candidate genes controlling salt tolerance [22].…”

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confidence: 99%