Evolution and expression of the fructokinase gene family in Saccharum

Chen, Yihong; Zhang, Qing; Hu, Weichang; Zhang, Xingtan; Wang, Liming; Hua, Xiuting; Yu, Qingyi; Ming, Ray; Zhang, Jisen

doi:10.1186/s12864-017-3535-7

Cited by 39 publications

(39 citation statements)

References 48 publications

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“…Recently, the expression of FRKs in C. sinensis was found to respond to salt stress, drought stress, and cold stress [ 34 ]. In Saccharum , FRK3 and FRK5 were both dramatically induced under drought stress [ 35 ]. Therefore, we speculate that the expression of MeFRK7 might be related to certain stressed conditions.…”

Section: Discussionmentioning

confidence: 99%

Identification, Expression, and Functional Analysis of the Fructokinase Gene Family in Cassava

Yao

Geng

Wu³

et al. 2017

IJMS

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Fructokinase (FRK) proteins play important roles in catalyzing fructose phosphorylation and participate in the carbohydrate metabolism of storage organs in plants. To investigate the roles of FRKs in cassava tuber root development, seven FRK genes (MeFRK1–7) were identified, and MeFRK1–6 were isolated. Phylogenetic analysis revealed that the MeFRK family genes can be divided into α (MeFRK 1, 2, 6, 7) and β (MeFRK 3, 4, 5) groups. All the MeFRK proteins have typical conserved regions and substrate binding residues similar to those of the FRKs. The overall predicted three-dimensional structures of MeFRK1–6 were similar, folding into a catalytic domain and a β-sheet ‘‘lid” region, forming a substrate binding cleft, which contains many residues involved in the binding to fructose. The gene and the predicted three-dimensional structures of MeFRK3 and MeFRK4 were the most similar. MeFRK1–6 displayed different expression patterns across different tissues, including leaves, stems, tuber roots, flowers, and fruits. In tuber roots, the expressions of MeFRK3 and MeFRK4 were much higher compared to those of the other genes. Notably, the expression of MeFRK3 and MeFRK4 as well as the enzymatic activity of FRK were higher at the initial and early expanding tuber stages and were lower at the later expanding and mature tuber stages. The FRK activity of MeFRK3 and MeFRK4 was identified by the functional complementation of triple mutant yeast cells that were unable to phosphorylate either glucose or fructose. The gene expression and enzymatic activity of MeFRK3 and MeFRK4 suggest that they might be the main enzymes in fructose phosphorylation for regulating the formation of tuber roots and starch accumulation at the tuber root initial and expanding stages.

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Section: Discussionmentioning

confidence: 99%

Identification, Expression, and Functional Analysis of the Fructokinase Gene Family in Cassava

Yao

Geng

Wu³

et al. 2017

IJMS

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“…Stem 9 for LA-Purple and Stem 6 for SES-208) and mature internode (i.e. Stem 15 for LA-Purple and Stem 9 for SES-208) as previously described [ 34 , 35 ].…”

Section: Methodsmentioning

confidence: 99%

New insights into the evolution and functional divergence of the SWEET family in Saccharum based on comparative genomics

Hua

Zhang

et al. 2018

BMC Plant Biol

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BackgroundThe SWEET (Sugars Will Eventually be Exported Transporters) gene family is a recently identified group of sugar transporters that play an indispensable role in sugar efflux, phloem loading, plant-pathogen interaction, nectar secretion, and reproductive tissue development. However, little information on Saccharum SWEET is available for this crop with a complex genetic background.ResultsIn this study, 22 SWEET genes were identified from Saccharum spontaneum Bacterial Artificial Chromosome libraries sequences. Phylogenetic analyses of SWEETs from 11 representative plant species showed that gene expansions of the SWEET family were mainly caused by the recent gene duplication in dicot plants, while these gene expansions were attributed to the ancient whole genome duplication (WGD) in monocot plant species. Gene expression profiles were obtained from RNA-seq analysis. SWEET1a and SWEET2s had higher expression levels in the transitional zone and maturing zone than in the other analyzed zones. SWEET1b was mainly expressed in the leaf tissues and the mature zone of the leaf of both S. spontaneum and S. officinarum, and displayed a peak in the morning and was undetectable in both sclerenchyma and parenchyma cells from the mature stalks of S. officinarum. SsSWEET4a\4b had higher expression levels than SWEET4c and were mainly expressed in the stems of seedlings and mature plants. SWEET13s are recently duplicated genes, and the expression of SWEET13s dramatically increased from the maturing to mature zones. SWEET16b’s expression was not detected in S. officinarum, but displayed a rhythmic diurnal expression pattern.ConclusionsOur study revealed the gene evolutionary history of SWEETs in Saccharum and SWEET1b was found to be a sucrose starvation-induced gene involved in the sugar transportation in the high photosynthetic zones. SWEET13c was identified as the key player in the efflux of sugar transportation in mature photosynthetic tissues. SWEET4a\4b were found to be mainly involved in sugar transportation in the stalk. SWEET1a\2a\4a\4b\13a\16b were suggested to be the genes contributing to the differences in sugar contents between S. spontaneum and S. officinarum. Our results are valuable for further functional analysis of SWEET genes and utilization of the SWEET genes for genetic improvement of Saccharum for biofuel production.Electronic supplementary materialThe online version of this article (10.1186/s12870-018-1495-y) contains supplementary material, which is available to authorized users.

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“…The K + concentration in the vacuole is highly varied to maintain cellular K + homeostasis. Some HAK transporters, such as HAK10, located in the tonoplast of vacuoles may play a role in regulating the K + concentration in vacuoles tissues in the seedling stage were collected from 35-dayold plants as previously described [44,45].…”

Section: Plant Materialsmentioning

confidence: 99%

Genome-wide systematic characterization of the HAK/KUP/KT gene family and its expression profile during plant growth and in response to low-K+ stress in Saccharum

Feng¹,

Wang

Zhang³

et al. 2020

BMC Plant Biol

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Background: Plant genomes contain a large number of HAK/KUP/KT transporters, which play important roles in potassium uptake and translocation, osmotic potential regulation, salt tolerance, root morphogenesis and plant development. Potassium deficiency in the soil of a sugarcane planting area is serious. However, the HAK/KUP/KT gene family remains to be characterized in sugarcane (Saccharum). Results: In this study, 30 HAK/KUP/KT genes were identified in Saccharum spontaneum. Phylogenetics, duplication events, gene structures and expression patterns were analyzed. Phylogenetic analysis of the HAK/KUP/KT genes from 15 representative plants showed that this gene family is divided into four groups (clades I-IV). Both ancient wholegenome duplication (WGD) and recent gene duplication contributed to the expansion of the HAK/KUP/KT gene family. Nonsynonymous to synonymous substitution ratio (Ka/Ks) analysis showed that purifying selection was the main force driving the evolution of HAK/KUP/KT genes. The divergence time of the HAK/KUP/KT gene family was estimated to range from 134.8 to 233.7 Mya based on Ks analysis, suggesting that it is an ancient gene family in plants. Gene structure analysis showed that the HAK/KUP/KT genes were accompanied by intron gain/loss in the process of evolution. RNA-seq data analysis demonstrated that the HAK/KUP/KT genes from clades II and III were mainly constitutively expressed in various tissues, while most genes from clades I and IV had no or very low expression in the tested tissues at different developmental stages. The expression of SsHAK1 and SsHAK21 was upregulated in response to low-K + stress. Yeast functional complementation analysis revealed that SsHAK1 and SsHAK21 could rescue K + uptake in a yeast mutant. Conclusions: This study provided insights into the evolutionary history of HAK/KUP/KT genes. HAK7/9/18 were mainly expressed in the upper photosynthetic zone and mature zone of the stem. HAK7/9/18/25 were regulated by sunlight. SsHAK1 and SsHAK21 played important roles in mediating potassium acquisition under limited K + supply. Our results provide valuable information and key candidate genes for further studies on the function of HAK/KUP/KT genes in Saccharum.

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Evolution and expression of the fructokinase gene family in Saccharum

Cited by 39 publications

References 48 publications

Identification, Expression, and Functional Analysis of the Fructokinase Gene Family in Cassava

Identification, Expression, and Functional Analysis of the Fructokinase Gene Family in Cassava

New insights into the evolution and functional divergence of the SWEET family in Saccharum based on comparative genomics

Genome-wide systematic characterization of the HAK/KUP/KT gene family and its expression profile during plant growth and in response to low-K+ stress in Saccharum

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