Genome-Wide Analysis and Cloning of the Apple Stress-Associated Protein Gene Family Reveals MdSAP15, Which Confers Tolerance to Drought and Osmotic Stresses in Transgenic Arabidopsis

Dong, Qinglong; Duan, Dingyue; Zhao, Shuang; Xu, Bingyao; Luo, Jiawei; Wang, Qian; Huang, Dong; Liu, Changhai; Li, Chao; Gong, Xiaoqing; Mao, Ke; Ma, Fengwang

doi:10.3390/ijms19092478

Cited by 44 publications

(38 citation statements)

References 57 publications

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“…Apple tissue ( Malus domestica ‘Royal Gala’) samples (stem, young root, mature leaf, flower, and ripening fruit) were collected from three 10-year-old apple trees in an artificially managed orchard to investigate expression pattern of the MdPIF s [ 62 , 63 ]. Of note, ripening fruits were collected 150 days after bloom and roots were taken from young roots that were newly grown in the year.…”

Section: Methodsmentioning

confidence: 99%

Identification of Phytochrome-Interacting Factor Family Members and Functional Analysis of MdPIF4 in Malus domestica

Zheng

Wang

Yang

et al. 2020

IJMS

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Phytochrome-interacting factors (PIFs), members of the basic helix-loop-helix transcription factor family that have been extensively investigated in Arabidopsis thaliana, play essential roles in plant growth and development. However, PIF members have not been systematically investigated in apples, a worldwide perennial woody crop of economic importance. Here, seven PIF genes were identified from the Malus × domestica reference genome. Chromosomal locations, gene structures, and phylogenetic relationships of these members were analyzed. Analysis of cis-acting elements in promoter regions of MdPIF genes indicated that various elements were related to light, abiotic stress, and plant hormone responsiveness. Subsequently, subcellular localization and transcriptional activity analysis revealed that MdPIFs were typical nuclear transcription factors with transcriptional activation ability. Expression analysis demonstrated that MdPIF genes had different gene expression patterns for various abiotic factors. Moreover, overexpressed MdPIF4 reduced the sensitivity of apple calluses to abscisic acid (ABA). Our work lays foundations for further investigation of PIF functions in plant growth and development in apples.

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Section: Methodsmentioning

confidence: 99%

Identification of Phytochrome-Interacting Factor Family Members and Functional Analysis of MdPIF4 in Malus domestica

Zheng

Wang

Yang

et al. 2020

IJMS

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“…Drought is reported to trigger strong expression of MdSAP15, MdSAP25 and MdSAP29 genes in apple [12] but, in contrast, OsSAP7 gene was down-regulated in rice shoots [19]. The expressions of FaSAP (closest homolog of OsSAP8) in the grass species, Festuca arundinacea, and PpSAP1 in plum (Prunus persica) were also highly up-regulated in plants under either salinity or drought [7,11].…”

Section: Introductionmentioning

confidence: 99%

“…Identified firstly in rice [ 4 ], 18 OsSAP genes were shown to have a strong similarity to 14 AtSAP genes of Arabidopsis thaliana [ 5 ]. SAP genes have also been studied in other plant species like maize [ 3 ], tomato [ 6 ], grasses Festuca arundinacea and Leymus chinensis [ 7 , 8 ], wheat [ 9 ], as well as cotton [ 10 ], plum and apple [ 11 , 12 ], Brassica napus and Medicago truncatula [ 13 , 14 ]. However, barley ( Hordeum vulgare ), an important cereal crop, represents a gap in our knowledge in this area, with no SAP genes as yet described and studied.…”

Section: Introductionmentioning

confidence: 99%

Identification, gene expression and genetic polymorphism of zinc finger A20/AN1 stress-associated genes, HvSAP, in salt stressed barley from Kazakhstan

et al. 2020

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Background A family of genes designated as the Zinc finger A20/AN1 Transcription factors encoding stress-associated proteins (SAP) are well described in Arabidopsis and rice, and include 14 AtSAP and 18 OsSAP genes that are associated with variable tolerances to multiple abiotic stresses. The SAP gene family displays a great diversity in its structure and across different plant species. The aim of this study was to identify all HvSAP genes in barley (Hordeum vulgare L.), to analyse the expression of selected genes in response to salinity in barley leaves and develop SNP marker for HvSAP12 to evaluate the association between genotypes of barley plants and their grain yield in field trials. Results In our study, 17 HvSAP genes were identified in barley, which were strongly homologous to rice genes. Five genes, HvSAP5, HvSAP6, HvSAP11, HvSAP12 and HvSAP15, were found to be highly expressed in leaves of barley plants in response to salt stress in hydroponics compared to controls, using both semi-quantitative RT-PCR and qPCR analyses. The Amplifluor-like SNP marker KATU-B30 was developed and used for HvSAP12 genotyping. A strong association (R2 = 0.85) was found between KATU-B30 and grain yield production per plant of 50 F3 breeding lines originating from the cross Granal × Baisheshek in field trials with drought and low to moderate salinity in Northern and Central Kazakhstan. Conclusions A group of HvSAP genes, and HvSAP12 in particular, play an important role in the tolerance of barley plants to salinity and drought, and is associated with higher grain yield in field trials. Marker-assisted selection with SNP marker KATU-B30 can be applied in barley breeding to improve grain yield production under conditions of abiotic stress.

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“…The conserved domains were predicted by Pfam 26.0 (http://pfam.xfam.org/) and the Conserved Domains program in NCBI (https://www.ncbi.nlm.nih.gov/Structure/cdd/wrpsb.cgi). CELLO v.2.5 (http://cello.life.nctu.edu.tw/), PSORT (https://psort.hgc.jp/form.html), and SoftBerry ProtComp 9.0 (http://linux1.softberry.com/) were used to predict subcellular locations (Dong et al, 2018a;Dong et al, 2018b;Dong et al, 2018c;Hao & Qiao, 2018).…”

Section: Gene Cloning and Sequence Analysismentioning

confidence: 99%

Cloning, sequencing, and expression analysis of 32 NAC transcription factors (MdNAC) in apple

Ran

Dong

et al. 2020

PeerJ

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Background NAC transcription factors play important roles in the regulation of plant growth, development, abiotic and biotic stress responses. The transcriptional level of MdNACs in different tissues and under various biotic and abiotic stress treatments was determined to provide a solid foundation for studying the function of MdNACs. Methods Thirty-two full-length cDNA sequences of Md NACs were isolated by homologous comparison and RT-PCR confirmation, and the obtained cDNA sequences and the deduced amino acid sequences were analyzed with bioinformatics methods. The prediction of subcellular locations of MdNAC proteins was performed using CELLO v.2.5, PSORT, and SoftBerry ProtComp 9.0. Expression levels of MdNACs were detected in 16 different tissues using an array. Expression patterns of MdNACs were detected in response to Alternaria alternata apple pathotype (AAAP) infection using RNA-seq, and the expression of MdNACs was analyzed under NaCl and mannitol treatments using RT-qPCR. Results The sequencing results produced 32 cDNAs (designated as MdNAC24-39, MdNAC54-65, and MdNAC67-70 with GenBank accession No. MG099861–MG099876, MG099891–MG099902, and MG099904–MG099907, respectively). Phylogenetic analysis revealed that MdNAC34 belonged to the ATAF group, MdNAC63 belonged to the AtNAC3 group, MdNAC24, MdNAC26-30, MdNAC32-33, MdNAC35, MdNAC37-39, MdNAC56-57, MdNAC59-62, MdNAC64-65, and MdNAC67-70 belonged to the NAM group, and MdNAC25, MdNAC36, MdNAC54-55, and MdNAC58 belonged to the VND group. Predictions of subcellular localization showed that MdNAC24-27, MdNAC29-30, MdNAC33-37, MdNAC39, MdNAC54-65, and MdNAC67-70 proteins were located in the nucleus, MdNAC28 proteins were located in the cytoplasm, MdNAC31-32 proteins were located in the nucleus and cytoplasm, and MdNAC38 proteins were located in the nucleus and plasma membrane. Array results indicated that 32 MdNACs were expressed in all examined tissues at various expression levels. RNA-seq results showed that expression levels of MdNAC26-28, MdNAC33-34, MdNAC60, MdNAC62-65, and MdNAC68 were induced, but MdNAC24, MdNAC32, and MdNAC58 were down-regulated in response to AAAP infection. Under salt treatment, MdNAC24, MdNAC27, MdNAC29, MdNAC34, MdNAC37, MdNAC39, MdNAC54, MdNAC59, and MdNAC63 transcription levels were induced. Under mannitol treatment, MdNAC32 and MdNAC54 transcription levels were induced, but MdNAC24, MdNAC28, MdNAC30, MdNAC33, MdNAC35, MdNAC37, MdNAC55, MdNAC56, MdNAC58, and MdNAC59 were down-regulated. Taken together, the results indicated that the cloned MdNAC genes were expressed constitutively in all examined tissues. These genes were up-regulated or down-regulated in response to AAAP infection and to salt or mannitol, which suggested they may be involved in the regulation of growth, development, and stress response in apple.

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Genome-Wide Analysis and Cloning of the Apple Stress-Associated Protein Gene Family Reveals MdSAP15, Which Confers Tolerance to Drought and Osmotic Stresses in Transgenic Arabidopsis

Cited by 44 publications

References 57 publications

Identification of Phytochrome-Interacting Factor Family Members and Functional Analysis of MdPIF4 in Malus domestica

Identification of Phytochrome-Interacting Factor Family Members and Functional Analysis of MdPIF4 in Malus domestica

Identification, gene expression and genetic polymorphism of zinc finger A20/AN1 stress-associated genes, HvSAP, in salt stressed barley from Kazakhstan

Cloning, sequencing, and expression analysis of 32 NAC transcription factors (MdNAC) in apple

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