Genomic structure and transcript analysis of the Rapid Alkalinization Factor (RALF) gene family during host-pathogen crosstalk in Fragaria vesca and Fragaria x ananassa strawberry

AbstractRapid Alkalinization Factor (RALF) are cysteins-rich peptides ubiquitous in plant kingdom. They play multiple roles as hormone signals, starting from root elongation, cell growth, pollen tube development and fertilization. Their involvement in host-pathogen crosstalk as negative regulator of immunity in Arabidopsis has also been recognized. In addition, RALF peptides are secreted by different fungal pathogens as effectors during early stages of infections. Campbell and Turner previously identified nine RALF genes in F. vesca v1 genome. Here, based on the recent release of Fragaria x ananassa genome and F. vesca reannotation, we aimed to characterize the genomic organization of the RALF gene family in both type of strawberry species according to tissue specific expression and homology with Arabidopsis. We reveal the presence of 13 RALF genes in F. vesca and 50 in Fragaria x ananassa, showing a non-homogenous localization of genes among the different Fragaria x ananassa subgenomes associated with their different TE element contents and genome remodeling during evolution. Fragaria x ananassa RALF genes expression inducibility upon infection with C. acutatum or B. cinerea was assessed and showed that, among fruit expressed RALF genes, FaRALF3-1 was the only one upregulated after fungal infection. In silico analysis and motif frequency analysis of the putative regulatory elements upstream of the FaRALF3 gene was carried out in order to identify distinct pathogen inducible elements. Agroinfiltration of strawberry fruit with 5’ deletion constructs of the FaRALF3-1 promoter identified a region required for FaRALF3 expression in fruit, but did not identify a region responsible for fungal induced expression.

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CHROMOSOME NUMBER AND TIME PERIOD OF MITOTIC CYCLE OF FESTIVAL AND CALIFORNICA STRAWBERRY CULTIVARS (Fragaria x ananassa AND Fragaria vesca)

KnE Life Sciences ◽

10.18502/kls.v2i1.194 ◽

2015 ◽

Vol 2 (1) ◽

pp. 476

Author(s):

Ganies Riza Aristya ◽

Rezika Alyza ◽

Rosyidatul Khoiroh ◽

Budi Setiadi Daryono

Keyword(s):

Chromosome Number ◽

Reverse Genetics ◽

Fragaria X Ananassa ◽

Fragaria Vesca ◽

Time Period ◽

Genomics Research ◽

Strawberry Cultivar ◽

Pre Treatment ◽

Seed Propagation ◽

Strawberry Cultivars

The cultivated strawberries, Fragaria x ananassa and Fragaria vesca, are the most economically-important softfruit species. F x ananassa and F vesca, both diploid (2n=2x=14) relatives of the commercial octoploid strawberry, are an attractive model for functional genomics research in Rosaceae. Its small genome size, short reproductive cycle, and facile vegetative and seed propagation make F. x annassa and F.vesca a promising candidates for forward and reverse genetics experiments. In order to determine their genetic differences in more detail, chromosome characterization of the two strawberry cultivars was investigated. A method used for chromosome slides in this research was a squash method with modification in pre-treatment. The result showed Fragaria x ananassa had (2n = 4x = 28) chromosome number is 28 and Fragaria vesca had (2n = 2x = 14) chromosome number is 14. The time of mitotic that both strawberry cultivars was similar at 7 to 8.30 am. In addition, mixoploid cells were found in both strawberry cultivar indicating that these cultivars had been treated by mutagenic agents for a breeding program. Keywords : Fragaria, chromosome, mitotic

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Genome-wide identification and transcript analysis during fruit ripening of ACS gene family in sweet orange (Citrus sinensis)

Scientia Horticulturae ◽

10.1016/j.scienta.2021.110786 ◽

2022 ◽

Vol 294 ◽

pp. 110786

Author(s):

Lifang Sun ◽

Nasrullah ◽

Fuzhi Ke ◽

Zhenpeng Nie ◽

Jianguo Xu ◽

...

Keyword(s):

Gene Family ◽

Fruit Ripening ◽

Citrus Sinensis ◽

Sweet Orange ◽

Transcript Analysis ◽

Genome Wide

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Regeneration of Plants from Protoplast of Cultivated Strawberry (Fragaria x ananassa) and Wild Strawberry (Fragaria vesca)

Biotechnology in Agriculture and Forestry - Plant Protoplasts and Genetic Engineering IV ◽

10.1007/978-3-642-78037-0_3 ◽

1993 ◽

pp. 32-42

Author(s):

M. Nyman ◽

P. Wallin

Keyword(s):

Fragaria X Ananassa ◽

Fragaria Vesca ◽

Wild Strawberry

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Bioinformatics identification and transcript profile analysis of the mitogen-activated protein kinase gene family in the diploid woodland strawberry Fragaria vesca

PLoS ONE ◽

10.1371/journal.pone.0178596 ◽

2017 ◽

Vol 12 (5) ◽

pp. e0178596 ◽

Cited By ~ 7

Author(s):

Wei Wei ◽

Zhuangzhuang Chai ◽

Yinge Xie ◽

Kuan Gao ◽

Mengyuan Cui ◽

...

Keyword(s):

Protein Kinase ◽

Gene Family ◽

Profile Analysis ◽

Mitogen Activated Protein Kinase ◽

Fragaria Vesca ◽

Transcript Profile ◽

Kinase Gene ◽

Woodland Strawberry ◽

Mitogen Activated Protein ◽

Protein Kinase Gene

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The plant glutathione transferase gene family: genomic structure, functions, expression and evolution

Physiologia Plantarum ◽

10.1046/j.1399-3054.2003.00183.x ◽

2003 ◽

Vol 119 (4) ◽

pp. 469-479 ◽

Cited By ~ 159

Author(s):

Carla Frova

Keyword(s):

Gene Family ◽

Glutathione Transferase ◽

Genomic Structure ◽

Structure Functions ◽

Transferase Gene

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Genome-Wide Identification and Characterization of MLO Gene Family in Octoploid Strawberry (Fragaria ×ananassa)

10.1101/2020.02.03.932764 ◽

2020 ◽

Author(s):

Ronald R. Tapia ◽

Christopher R. Barbey ◽

Saket Chandra ◽

Kevin M. Folta ◽

Vance M. Whitaker ◽

...

Keyword(s):

Gene Family ◽

Genomic Structure ◽

Resistance Locus ◽

Fragaria Ananassa ◽

Loss Of Function ◽

Genetic Studies ◽

Genome Wide ◽

Segregating Population

AbstractPowdery mildew (PM) caused by Podosphaera aphanis is a major fungal disease in cultivated strawberry. Mildew Resistance Locus O (MLO) is a gene family described for having conserved seven-transmembrane domains. Induced loss-of-function in specific MLO genes can confer durable and broad resistance against PM pathogens. However, the underlying biological role of MLO genes in strawberry is still unknown. In the present study, the genomic structure of MLO genes were characterized in both diploid (Fragaria vesca) and octoploid strawberry (Fragaria ×ananassa), and the potential sources of MLO-mediated susceptibility were identified. Twenty MLO-like sequences were identified in F. vesca, with sixty-eight in F. ×ananassa. Phylogenetic analysis divides strawberry MLO genes into eight different clades, in which three FveMLO and ten FaMLO genes were grouped together with the functionally known MLO susceptibility. Out of ten FaMLO genes, FaMLO17-2 and FaMLO17-3 showed the highest similarity to the known susceptibility MLO proteins. Gene expression analysis of FaMLO genes was conducted using a multi-parental segregating population. Three expression quantitative trait loci (eQTL) were substantially associated with MLO transcript levels in mature fruits, suggesting discrete genetic control of susceptibility. These results are a critical first step in understanding allele function of MLO genes, and are necessary for further genetic studies of PM resistance in cultivated strawberry.

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Protein disulphide isomerase family in bread wheat (Triticum aestivum L.): genomic structure, synteny conservation and phylogenetic analysis

Plant Genetic Resources ◽

10.1017/s1479262111000232 ◽

2011 ◽

Vol 9 (2) ◽

pp. 342-346 ◽

Cited By ~ 1

Author(s):

E. d'Aloisio ◽

A. R. Paolacci ◽

A. P. Dhanapal ◽

O. A. Tanzarella ◽

E. Porceddu ◽

...

Keyword(s):

Phylogenetic Analysis ◽

Gene Family ◽

Bread Wheat ◽

Plant Species ◽

Genomic Structure ◽

Triticum Aestivum L ◽

Protein Disulphide Isomerase ◽

Homoeologous Genes ◽

Genes Encoding ◽

High Level

Eight genes encoding protein disulphide isomerase (PDI)-like proteins in bread wheat were cloned and characterized and their genomic structure was compared with that of homoeologous genes isolated from other plant species. Fourteen wheat cDNA sequences of PDI-like genes were amplified and cloned; eight of them were relative to distinct PDI-like genes, whereas six corresponded to homoeologous sequences. Also, the genomic sequences of the eight non-homoeologous genes were amplified and cloned. Phylogenetic analysis, which included eight genes encoding PDI-like proteins and the gene encoding the typical PDI, assigned at least one of them to each of the eight major clades identified in the phylogenetic tree of the PDI gene family of plants. The close chromosome synteny between wheat and rice was confirmed by the location of the homoeologous genes of the PDI family in syntenic regions of the two species. Within the same phylogenetic group, a high level of conservation, in terms of sequence homology, genomic structure and domain organization, was detected between wheat and the other plant species. The high level of conservation of sequence and genomic organization within the PDI gene family, even between distant plant species, might be ascribed to the key metabolic roles of their protein products.

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