Genome-wide survey and expression analysis of the amino acid transporter superfamily in potato ( Solanum tuberosum  L.)

Ma, Hongwei; Cao, Xiaoli; Shi, Shandang; Li, Silu; Gao, Junpeng; Ma, Yussanne; Zhao, Qin; Chen, Qin

doi:10.1016/j.plaphy.2016.06.007

Cited by 74 publications

(86 citation statements)

References 56 publications

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“…The expression levels of gene from the diverse treatment were normalized using a reference gene, elongation factor 1-a (ef1a) [38]. The relative expression levels were analyzed from the method of Haoli Ma [39]. …”

Section: Methodsmentioning

confidence: 99%

Genome-wide identification of the potato WRKY transcription factor family

et al. 2017

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WRKY transcription factors play pivotal roles in regulation of stress responses. This study identified 79 WRKY genes in potato (Solanum tuberosum). Based on multiple sequence alignment and phylogenetic relationships, WRKY genes were classified into three major groups. The majority of WRKY genes belonged to Group II (52 StWRKYs), Group III had 14 and Group I consisted of 13. The phylogenetic tree further classified Group II into five sub-groups. All StWRKY genes except StWRKY79 were mapped on potato chromosomes, with eight tandem duplication gene pairs and seven segmental duplication gene pairs found from StWRKY family genes. The expression analysis of 22 StWRKYs showed their differential expression levels under various stress conditions. Cis-element prediction showed that a large number of elements related to drought, heat and salicylic acid were present in the promotor regions of StWRKY genes. The expression analysis indicated that seven StWRKYs seemed to respond to stress (heat, drought and salinity) and salicylic acid treatment. These genes are candidates for abiotic stress signaling for further research.

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Section: Methodsmentioning

confidence: 99%

Genome-wide identification of the potato WRKY transcription factor family

et al. 2017

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“…The AAT gene family members have been identified in Arabidopsis (Tegeder, 2012), rice (Lu et al, 2012), poplar (Wu et al, 2015), Solanum tuberosum L. (Ma et al, 2016) and Glycine max L. (Cheng et al, 2016). This showed that AAP transporters play an important role in loading of amino acids for nitrogen sink and supply (Tegeder and Ward, 2012).…”

Section: Introductionmentioning

confidence: 97%

Differential Expression Pattern of Splice Variants of Amino Acid Transporter Genes from Rice Grown under Various Nitrogen Conditions and during Development

Fang¹

2017

IJAB

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Amino acid transporters (AATs) play indispensable roles in nutrient uptake and allocation for plants. Alternative splicing of gene's post transcription can increase diversity of protein and allow novel ways to regulate growth and development of plant. In this study, 11 OsAAT alternative-splicing genes with 24 kinds of predicted mRNAs were identified from 85 rice AAT genes; of these, 23 alternative-splicing open reading frames were actually expressed in rice. Quantitative real time-polymerase chain reaction results showed that the predicted primary splice variant 1 was the main alternative splice variant for 8 genes because of its higher expression levels but splice variant 2 was also an important variant existing individually. The expression of splice variants in a gene was regulated by nitrogen (N) and the expression of 5 genes was up-regulated at higher concentration of all forms of N and that of nine genes was up-regulated at higher nitrate concentration. The mRNA levels of splice variants were also regulated during leaf and panicle development of rice. It indicated that alternative splice variants of OsAAT family were regulated with a natural variation in expression ratio grown under various nitrogen conditions in rice.

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“…As of March, 2017, the original publication of the DM sequence has been cited more than 500 times, providing a framework for studies of gene families (Charfeddine et al 2015;Gao et al 2016;Ma et al 2016;Schreiber et al 2014;Seo et al 2016;Tang et al 2016;Van Harsselaar et al 2017), a scaffold for alignment of transcriptomic data (Campbell et al 2014;Gong et al 2015;Goyer et al 2015;Liu et al 2015;Morris et al 2014;Tang et al 2014) or a reference genome against which to discover genomic variation (Hardigan et al 2016), to cite just a few. As sequencing platforms improve, the DM assembly will likely be supplanted by that of a more robust commercial potato line.…”

Section: Resultsmentioning

confidence: 99%