scholarly journals De NovoTranscriptome Sequencing of the Orange-Fleshed Sweet Potato and Analysis of Differentially Expressed Genes Related to Carotenoid Biosynthesis

2015 ◽  
Vol 2015 ◽  
pp. 1-10 ◽  
Author(s):  
Ruijie Li ◽  
Hong Zhai ◽  
Chen Kang ◽  
Degao Liu ◽  
Shaozhen He ◽  
...  
Keyword(s):  
Sweet Potato ◽  
Differentially Expressed Genes ◽  
Ipomoea Batatas ◽  
High Throughput Sequencing ◽  
Average Length ◽  
Potato Cultivar ◽  
Carotenoid Biosynthesis ◽  
Differentially Expressed ◽  
Carotenoid Content ◽  
Orange Fleshed Sweet Potato

Sweet potato,Ipomoea batatas(L.) Lam., is an important food crop worldwide. The orange-fleshed sweet potato is considered to be an important source of beta-carotene. In this study, the transcriptome profiles of an orange-fleshed sweet potato cultivar “Weiduoli” and its mutant “HVB-3” with high carotenoid content were determined by using the high-throughput sequencing technology. A total of 13,767,387 and 9,837,090 high-quality reads were produced from Weiduoli and HVB-3, respectively. These reads werede novoassembled into 58,277 transcripts and 35,909 unigenes with an average length of 596 bp and 533 bp, respectively. In all, 874 differentially expressed genes (DEGs) were obtained between Weiduoli and HVB-3, 401 of which were upregulated and 473 were downregulated in HVB-3 compared to Weiduoli. Of the 697 DEGs annotated, 316 DEGs had GO terms and 62 DEGs were mapped onto 50 pathways. The 22 DEGs and 31 transcription factors involved in carotenoid biosynthesis were identified between Weiduoli and HVB-3. In addition, 1,725 SSR markers were detected. This study provides the genomic resources for discovering the genes involved in carotenoid biosynthesis of sweet potato and other plants.

scholarly journals Assessment of some attributes of unripe cooking banana (Cardaba Musa ABB), pigeon pea (Cajanus cajan) and orange fleshed sweet potato (Ipomoea batatas) flour blends for use as complementary feeding

2019 ◽  
Vol 11 (1) ◽  
pp. 67-75
Author(s):  
Abiodun Aderoju Adeola ◽  
Oluwatebiloba Margaret Solola ◽  
Olalekan Apata ◽  
Ehimen Rita Ohizua
Keyword(s):  
Sweet Potato ◽  
Ipomoea Batatas ◽  
Ph Value ◽  
Pigeon Pea ◽  
Carotenoid Content ◽  
Crude Fibre ◽  
Total Carotenoid Content ◽  
Flour Blends ◽  
Orange Fleshed Sweet Potato ◽  
Cooking Banana

This study assessed the nutrient composition, physicochemical, functional and sensory properties of flour blends prepared from cooking banana, pigeon pea and orange fleshed sweet potato flour blends for use as complementary food. Fourteen blends were generated using the simplex centroid mixture design. All data obtained were subjected to analysis of variance and the mean values were separated using Duncan’s Multiple Range Test. The protein, crude fibre, crude fat, ash and carbohydrate of the blends were significantly (p≤0.05) different with values ranging from 10.60-21.65%, 0.36-1.24%, 1.2-1.43%, 0.77 – 2.25% and 65.86 -75.36%, respectively. There was no significant (p≤0.05) difference in the moisture content, total carotenoid content and pH value of the blends. The L* value (40.77 to 45.25) showed no significant (p≤0.05) difference while the redness (a*) and yellowness (b*) value were significantly (p≤0.05) different with values ranging from 2.32 – 4.59 and 11.88 – 15.88 respectively. There was a significant (p≤0.05) difference in the bulk density (0.73 – 0.78 g/ml), water absorption capacity (122.05-178.10%), swelling power (6.21 – 8.48%) and solubility (3.77-7.30%) values. Gruels obtained from the flour blends had sensory scores of above 6.00 (on a 9-point Hedonic scale), signifying high acceptability for all the sensory attributes evaluated.

scholarly journals Genetic Variation and Sequence Diversity of Starch Biosynthesis and Sucrose Metabolism Genes in Sweet Potato

Agronomy ◽  
2020 ◽  
Vol 10 (5) ◽  
pp. 627
Author(s):  
Kai Zhang ◽  
Kai Luo ◽  
Shixi Li ◽  
Deliang Peng ◽  
Daobin Tang ◽  
...  
Keyword(s):  
Sweet Potato ◽  
Ipomoea Batatas ◽  
Molecular Mechanisms ◽  
High Throughput Sequencing ◽  
Genetic Variations ◽  
Starch Biosynthesis ◽  
Sucrose Metabolism ◽  
Gene Copy ◽  
Starch Properties ◽  
Sequence Variations

Knowledge of genetic variations can provide clues into the molecular mechanisms regulating key crop traits. Sweet potato (Ipomoea batatas (L.) Lam.) is an important starch-producing crop, but little is known about the genetic variations in starch biosynthesis and sucrose metabolism genes. Here, we used high-throughput sequencing of pooled amplicons of target genes to identify sequence variations in 20 genes encoding key enzymes involved in starch biosynthesis and sucrose metabolism in 507 sweet potato germplasms. After filtering potential variations between gene copies within the genome, we identified 622 potential allelic single nucleotide polymorphisms (SNPs) and 85 insertions/deletions (InDels), including 50 non-synonymous SNPs (nsSNPs) and 12 frameshift InDels. Three nsSNPs were confirmed to be present in eight sweet potato varieties with various starch properties using cleaved amplified polymorphic sequence (CAPS) markers. Gene copy with loss of the fifth intron was detected in IbAGPb3 genes, and loss of multiple introns were observed in IbGBSS1-1 genes and various among germplasms based on intron length polymorphism (ILP) markers. Thus, we identified sequence variations between germplasms in 20 genes involved in starch biosynthesis and sucrose metabolism, and demonstrated the diversity in intron-loss alleles among sweet potato germplasms. These findings provide critical genetic information and useful molecular markers for revealing regulatory mechanism of starch properties.

Overexpression of theIbMYB1gene in an orange-fleshed sweet potato cultivar produces a dual-pigmented transgenic sweet potato with improved antioxidant activity

2014 ◽  
Vol 153 (4) ◽  
pp. 525-537 ◽  
Author(s):  
Sung-Chul Park ◽  
Yun-Hee Kim ◽  
Sun Ha Kim ◽  
Yu Jeong Jeong ◽  
Cha Young Kim ◽  
...  
Keyword(s):  
Antioxidant Activity ◽  
Sweet Potato ◽  
Potato Cultivar ◽  
Orange Fleshed Sweet Potato

scholarly journals Transcriptome Analysis of ‘Haegeum’ Gold Kiwifruit Following Ethylene Treatment to Improve Postharvest Ripening Quality

Agronomy ◽  
2020 ◽  
Vol 10 (4) ◽  
pp. 487 ◽  
Author(s):  
Shimeles Tilahun ◽  
Han Ryul Choi ◽  
Hyok Kwon ◽  
Sung Min Park ◽  
Do Su Park ◽  
...  
Keyword(s):  
Fruit Ripening ◽  
High Throughput Sequencing ◽  
De Novo ◽  
Average Length ◽  
Titratable Acidity ◽  
Differentially Expressed ◽  
Soluble Solids ◽  
Sequencing Platform ◽  
Ethylene Treatment ◽  
Control Fruit

Fruit ripening involves changes in physical, physiological and metabolic activities through the actions of enzymes and regulatory genes. This study was initiated to identify the genes related to the ripening of kiwifruit. Gold ‘Haegeum’ kiwifruit is a yellow-fleshed kiwifruit cultivar usually used for fresh marketing. The fruit is harvested at a physiologically mature but unripe stage for proper storage, marketing distribution and longer shelf life. To identify the differentially expressed genes (DEGs) during ripening, fruit treated with ethylene were compared with control fruit that ripened naturally without ethylene treatment. Firmness, respiration rate, ethylene production rate, total soluble solids (TSS), titratable acidity (TA), brix acid ratio (BAR) and overall acceptability were taken during the study as fruit ripening indicators. Total mRNAs were sequenced by Illumina high-throughput sequencing platform and the transcriptome gene set was constructed by de novo assembly. We identified 99,601 unigenes with an average length of 511.77 bp in transcriptome contigs. A total of 28,582 differentially expressed unigenes were identified in the ethylene treatment vs. control. Of these 28,582 unigenes, 13,361 and 15,221 genes were up- and downregulated, respectively, in the treated fruit. The results also showed that 1682 and 855 genes were up- and downregulated, respectively, more than 2-fold at p < 0.05 in fruit treated with ethylene as compared with the control fruit. Moreover, we identified 75 genes showing significantly different expression; 42 were upregulated, and 33 were downregulated. A possible category of the identified ripening-related genes was also made. The findings of this study will add to the available information on the effect of ethylene treatment on ripening and the related changes of kiwifruit at the genomic level, and it could assist the further study of genes related to ripening for kiwifruit breeding and improvement.

scholarly journals Physiological and Anatomical Differences and Differentially Expressed Genes Reveal Yellow Leaf Coloration in Shumard Oak

Plants ◽  
2020 ◽  
Vol 9 (2) ◽  
pp. 169
Author(s):  
Xiaoyun Dong ◽  
Libin Huang ◽  
Qingsheng Chen ◽  
Yunzhou Lv ◽  
Hainan Sun ◽  
...  
Keyword(s):  
Chlorophyll Content ◽  
Differentially Expressed Genes ◽  
Structural Damage ◽  
Chlorophyll Biosynthesis ◽  
Differentially Expressed ◽  
Carotenoid Content ◽  
Yellow Leaf ◽  
Pheophorbide A ◽  
Chlorophyll Fluorescence Parameters ◽  
Leaf Coloration

Shumard oak (Quercus shumardii Buckley) is a traditional foliage plant, but little is known about its regulatory mechanism of yellow leaf coloration. Here, the yellow leaf variety of Q. shumardii named ‘Zhongshan Hongjincai’ (identified as ‘ZH’ throughout this work) and a green leaf variety named ‘Shumard oak No. 23’ (identified as ‘SO’ throughout this work) were compared. ‘ZH’ had lower chlorophyll content and higher carotenoid content; photosynthetic characteristics and chlorophyll fluorescence parameters were also lower. Moreover, the mesophyll cells of ‘ZH’ showed reduced number of chloroplasts and some structural damage. In addition, transcriptomic analysis identified 39,962 differentially expressed genes, and their expression levels were randomly verified. Expressions of chlorophyll biosynthesis-related glumly-tRNA reductase gene and Mg-chelatase gene were decreased, while pheophorbide a oxygenase gene associated with chlorophyll degradation was up-regulated in ‘ZH’. Simultaneously, carotenoid isomerase gene, z-carotene desaturase gene, violaxanthin de-epoxidase gene and zeaxanthin epoxidase gene involved in carotenoid biosynthesis were up-regulated in ‘ZH’. These gene expression changes were accompanied by decreased chlorophyll content and enhanced carotenoid accumulation in ‘ZH’. Consequently, changes in the ratio of carotenoids to chlorophyll could be driving the yellow leaf coloration in Q. shumardii.

scholarly journals Transcriptome and Gene Expression Analysis of Cylas formicarius (Coleoptera: Brentidae) During Different Development Stages

2016 ◽  
Vol 16 (1) ◽  
Author(s):  
Juan Ma ◽  
Rongyan Wang ◽  
Xiuhua Li ◽  
Bo Gao ◽  
Shulong Chen
Keyword(s):  
Sweet Potato ◽  
Molecular Mechanisms ◽  
Developmental Stages ◽  
De Novo ◽  
Average Length ◽  
Expression Profiles ◽  
Enrichment Analysis ◽  
Differentially Expressed ◽  
Cylas Formicarius ◽  
Important Pest

Abstract The sweet potato weevil, Cylas formicarius (F.) (Coleoptera: Brentidae), is an important pest of sweet potato worldwide. However, there is limited knowledge on the molecular mechanisms underlying growth and differentiation of C. formicarius. The transcriptomes of the eggs, second instar larvae, third instar larvae (L3), pupae, females, and males of C. formicarius were sequenced using Illumina sequencing technology for obtaining global insights into developing transcriptome characteristics and elucidating the relative functional genes. A total of 54,255,544 high-quality reads were produced, trimmed, and de novo assembled into 115,281 contigs. 61,686 unigenes were obtained, with an average length of 1,009 nt. Among these unigenes, 17,348 were annotated into 59 Gene Ontology (GO) terms and 12,660 were assigned to 25 Cluster of Orthologous Groups classes, whereas 24,796 unigenes were mapped to 258 pathways. Differentially expressed unigenes between various developmental stages of C. formicarius were detected. Higher numbers of differentially expressed genes (DEGs) were recorded in the eggs versus L3 and eggs versus male samples (2,141 and 2,058 unigenes, respectively) than the others. Genes preferentially expressed in each stage were also identified. GO and pathway-based enrichment analysis were used to further investigate the functions of the DEGs. In addition, the expression profiles of ten DEGs were validated by quantitative real-time PCR. The transcriptome profiles presented in this study and these DEGs detected by comparative analysis of different developed stages of C. formicarius will facilitate the understanding of the molecular mechanism of various living process and will contribute to further genome-wide research.

scholarly journals Orange-fleshed sweet potato (Ipomoea batatas) extract attenuates lipopolysaccharide-induced inflammation in RAW264.7 cells via inactivation of MAPKs and IkB signalling

2019 ◽  
Vol 25 (2) ◽  
pp. 247-260
Author(s):  
Yada Saokosol ◽  
◽  
Kemika Praengam ◽  
Monruedee Sukprasansap ◽  
Siriporn Tuntipopipat ◽  
...  
Keyword(s):  
Sweet Potato ◽  
Ipomoea Batatas ◽  
Raw264.7 Cells ◽  
Orange Fleshed Sweet Potato

scholarly journals Selenium Regulates Gene Expression for Glucosinolate and Carotenoid Biosynthesis in Arabidopsis

2011 ◽  
Vol 136 (1) ◽  
pp. 23-34 ◽  
Author(s):  
Carl E. Sams ◽  
Dilip R. Panthee ◽  
Craig S. Charron ◽  
Dean A. Kopsell ◽  
Joshua S. Yuan
Keyword(s):  
Gene Expression ◽  
Differentially Expressed Genes ◽  
Plant Species ◽  
Chlorophyll Biosynthesis ◽  
Plant Secondary Metabolites ◽  
Carotenoid Biosynthesis ◽  
Differentially Expressed ◽  
Biosynthesis Pathway ◽  
Tissue Samples ◽  
Expression Of Genes

Glucosinolates (GSs) and carotenoids are important plant secondary metabolites present in several plant species, including arabidopsis (Arabidopsis thaliana). Although genotypic and environmental regulation of GSs and carotenoid compounds has been reported, few studies present data on their regulation at the molecular level. Therefore, the objective of this study was to explore differential expression of genes associated with GSs and carotenoids in arabidopsis in response to selenium fertilization, shown previously to impact accumulations of both classes of metabolites in Brassica species. Arabidopsis was grown under 0.0 or 10.0 μM Na2SeO4 in hydroponic culture. Shoot and root tissue samples were collected before anthesis to measure GSs and carotenoid compounds and conduct gene expression analysis. Gene expression was determined using arabidopsis oligonucleotide chips containing more than 31,000 genes. There were 1274 differentially expressed genes in response to selenium (Se), of which 516 genes were upregulated. Ontology analysis partitioned differentially expressed genes into 20 classes. Biosynthesis pathway analysis using AraCyc revealed that four GSs, one carotenoid, and one chlorophyll biosynthesis pathways were invoked by the differentially expressed genes. Involvement of the same gene in more than one biosynthesis pathway indicated that the same enzyme may be involved in multiple GS biosynthesis pathways. The decrease in carotenoid biosynthesis under Se treatment occurred through the downregulation of phytoene synthase at the beginning of the carotenoid biosynthesis pathway. These findings may be useful to modify the GS and carotenoid levels in arabidopsis and may lead to modification in agriculturally important plant species.

scholarly journals De novo assembly of expressed transcripts and analysis of pistil to identify genes involved in early stage of pollination in Liriodendron chinense

2017 ◽  
Author(s):  
Ming Li ◽  
Kun Wang ◽  
Rebecca Njeri Damaris ◽  
Pingfang Yang
Keyword(s):  
Pollen Tube ◽  
Sexual Reproduction ◽  
Differentially Expressed Genes ◽  
De Novo ◽  
Early Stage ◽  
Average Length ◽  
Differentially Expressed ◽  
Seed Setting ◽  
Sequencing Data ◽  
Liriodendron Chinense

Plant sexual reproduction is a complicated and a key biological process with profuse interactions between pollen and pistil. This process determines whether fertilization will be successful or not and thus affect the seed setting. To explore the reason why L. chinense has a low seed setting ratio, transcriptome analysis on pistils of L. chinense during pollination were conducted. After analyzing the sequencing data, 206,858 unigenes with an average length of 646 bp were generated using the assembled transcripts. Among total unigenes, 3844 genes which expression fold change during early stage of pollination was higher or lower than 10 were selected as significant differentially expressed genes. 54 differentially expressed genes involved in sexual reproduction processes including the regulation of pollen tube growth process and double fertilization process might be partially causing the low seed setting in L. chinense. These results indicated that the barrier between pollen tube and pistil might be the reason why L. chinense have low seed setting. This study might be helpful to understand why L. chinense has such a low seed setting ratio.

Sign in / Sign up

Export Citation Format

Share Document