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1. Genome-wide identification and expression analysis of the polyamine biosynthesis gene in sweet orange (Citrus sinensis) | |||
WuHao,Liu Jihong | |||
Agronomy 28 April 2017 | |||
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Abstract:Polyamines (PAs) are low molecular weight, aliphatic polycations found in the cells of all living organisms. And in plants, a growing number of evidences support that PAs play important roles in abiotic stresses. In this study, a total of 18 polyamine biosynthesis genes which belong to 10 kinds of different polyamine biosynthesis enzymes were isolated from the entire citrus genome and a further analysis including the chromosomal locations, phylogenetic relationships, functional annotations, promoter analysis, and gene structures were performed. Tissue specific expression of these genes was detected in root, stem, leaf, pulp, peel, and callus. The polyamine biosynthesis gene displayed various responses to exogenous polyamines (putrescine, spermidine, spermine) and ABA treatments, and were differentially altered by abiotic stresses, including cold and salt. And the change patterns of three main polyamines during cold stress in leaves and callus were characterized. The comprehensive analysis of polyamine biosynthesis gene is helpful to exploit strategies to improve plant tolerance to multiple environmental stresses. | |||
TO cite this article:WuHao,Liu Jihong. Genome-wide identification and expression analysis of the polyamine biosynthesis gene in sweet orange (Citrus sinensis)[OL].[28 April 2017] http://en.paper.edu.cn/en_releasepaper/content/4730680 |
2. Volatile profiling of two local pears with rich aroma for white pear aroma improvement breeding | |||
YI Xingkai,LIU Guofeng,WEI Shu | |||
Agronomy 28 May 2016 | |||
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Abstract:Volatile profiles of two local cultivars with substantial aroma grown in Anhui, China, 'Xiang-Mian Li' (XML) and 'Mu-Tou Su' (MTS), were compared with those of control cultivars 'Dang-Shan Suli' (DSS) (Pyrus bretschneideri) and 'Nan-Guo Li' (NGL) (P. ussuriensis). Volatiles detected from the intact fruits of XML, MTS, NGL and DSS were 11, 14, 7 and 25, respectively; the rank of their total odor active values was NGL>XML>MTS>DSS. Ethyl hexanoate was the most abundant and odor active compound for XML, MTS and NGL. Substantial amounts of alcohols were found in homogenized flesh of XML and MTS. Multivariate analysis identified ethyl hexanoate and diethylene glycol as the most important contributors to the volatile profile variance in intact fruit and pulp. Our data suggested that the aroma of XML was more intense than MTS and it has high potential for Chinese white pear aroma improvement to maintaining its typical characteristics. | |||
TO cite this article:YI Xingkai,LIU Guofeng,WEI Shu. Volatile profiling of two local pears with rich aroma for white pear aroma improvement breeding[OL].[28 May 2016] http://en.paper.edu.cn/en_releasepaper/content/4692153 |
3. Pear 14-3-3b Gene is Regulated during Fruit Development and Involved in Response to Salicylic Acid | |||
SHI Haiyan,ZHANG Yuxing | |||
Agronomy 30 October 2014 | |||
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Abstract:Plant 14-3-3 proteins (14-3-3s) are known to function in protein-protein interactions that mediate signal transduction pathways regulating many biological processes. The cDNA encoding putative 14-3-3 protein was isolated from pear (Pyrus pyrifolia) and designated Pp14-3-3b. Using PCR amplification technique, the genomic clone corresponding to Pp14-3-3b was isolated and shown to contain six introns. Phylogenetic analysis clearly demonstrated that Pp14-3-3b was classified into non-ε class of 14-3-3 super-families. Quantitative RT-PCR analysis indicated that the expression of Pp14-3-3b gene was developmentally regulated in fruit. Further study demonstrated that Pp14-3-3b expression was inhibited by salicylic acid (SA) in pear fruit. These data suggested that Pp14-3-3b might be involved in response to SA signaling during fruit ripening and senescence of pear. | |||
TO cite this article:SHI Haiyan,ZHANG Yuxing. Pear 14-3-3b Gene is Regulated during Fruit Development and Involved in Response to Salicylic Acid[OL].[30 October 2014] http://en.paper.edu.cn/en_releasepaper/content/4616104 |
4. Identification of differentially expressed genes in 72 h styles from self-incompatible Citrus reticulata | |||
Miao Hongxia,Ye Zixing,Hu Guibing,Qin Yonghua | |||
Agronomy 18 July 2013 | |||
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Abstract:Self-incompatibility (SI) is one important factor that can result in seedless fruits of Citrus. Our previous study showed that 'Wuzishatangju' mandarin was gametophytic self-incompatibility (GSI) and 72 h was the crucial stage for the shift from a self-compatible to a self-incompatible state. However, it is not clear what genes are involved in the process. In this study, two SSH libraries were constructed to screen differentially expressed genes using 72 h styles after self-pollination of 'Wuzishatangju' and cross-pollination of 'Wuzishatangju' × 'Shatangju'. 106 and 97 differentially expressed cDNA clones were sequenced and identified from forward and reverse SSH libraries, respectively. Differentially expressed ESTs are possibly involved in the SI reaction of 'Wuzishatangju' through S-phase kinase-associated protein1 (SKP1)-like activity, autoinhibited Ca2+-ATPase 1, U-box domain protein, and serine/threonine kinase. Results from quantitative real-time PCR (qPCR) showed that SKP1-like and U-box were obviously up-regulated in ovaries before pollination of 'Wuzishatangju', and approximately 20-and 2-fold higher than that of 'Shatangju', respectively. The SKP1-like and U-box were obviously up-regulated in pistils at 4 d after self-pollination of 'Wuzishatangju', and approximately 20-and 800-fold higher than that the same stage after cross-pollination of 'Wuzishatangju' × 'Shatangju', respectively. The potential involvement of these genes in the SI reaction is discussed. | |||
TO cite this article:Miao Hongxia,Ye Zixing,Hu Guibing, et al. Identification of differentially expressed genes in 72 h styles from self-incompatible Citrus reticulata[J]. |
5. Superoxide dismutase multigene family in longan somatic embryo: a comparison of the CuZn-SODs, Fe- SODs, and Mn-SOD gene structures,splicing, phylogeny, promoters and expression | |||
Lin Yuling,Lai Zhongxiong | |||
Agronomy 04 December 2012 | |||
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Abstract: Superoxide dismutases (SODs) encoded by a multigene family are important antioxidant enzymes that guard against superoxide toxicity. To date, no systematic characterization of this gene family has been conducted and their functions are not completely clear in plant embryos. 20 full-length cDNAs, encoding cytoplasmic CSD1a and DlCSD1b, chloroplast DlCSD2a and DlFSD1a, plastidic DlFSD1b and mitochondrial DlMSD, respectively, were obtained from longan embryogenic callus (EC) by RT-PCR and RACE. Each member contained multiple polyadenylation sites. The genomic structures of DlCSD1a, DlCSD1b, DlCSD2a, DlFSD1a, DlFSD1b and DlMSD genes consisted eight, six, seven, six, seven and five introns, respectively, and their introns lengths varied greatly. In addition, seven variants with different splicing modes were cloned, showing their functional diversity during longan somatic emrbyogenesis (SE). Further, each type of SOD gene had multiple transcription start sites (TSS), and the choice of TSS in SODs only affected the length of the 5'UTR, but not created protein diversity. Meanwhile, the promoters of DlCSD1a, DlCSD2a, DlFSD1a and DlMSD were isolated, which contained lots of cis-acting elements in response to light, GA, auxin, JA, MeJA, dehydration, coldness, wounding, etc. Comprehensive analysis of the expression profiles showed that the different types of SOD showed different spatial and temporal expression modes and played a key role especially at the middle and later developmental stages during longan SE. This study provided the comprehensive analysis of the whole SOD gene family from plants SE for the first time, including cloning of the full-length cDNAs, gene structures, alternatively spliced variants, phylogeny, TSS, isolation of promoters, and expression patterns, and these comparisons could provide a multifaceted view on diverse functions of the SOD isoforms during longan somatic embryos formation. | |||
TO cite this article:Lin Yuling,Lai Zhongxiong. Superoxide dismutase multigene family in longan somatic embryo: a comparison of the CuZn-SODs, Fe- SODs, and Mn-SOD gene structures,splicing, phylogeny, promoters and expression[OL].[ 4 December 2012] http://en.paper.edu.cn/en_releasepaper/content/4498654 |
6. Analyses of global transcriptomics and metabolic network on longan (Dimocarpus longan Lour.) embryogenic callus by Illumina paired-end sequencing | |||
Lai Zhongxiong,Lin Yuling | |||
Agronomy 05 February 2012 | |||
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Abstract:Background: Longan, a famous tropical/subtropical woody fruit in Southeast Asia. However, progress in the molecular mechanism of longan embryogenesis influencing yield and quality is slow by lack of transcriptomic and genomic information. Illumina second generation sequencing is suitable for generating enormous transcript sequences for functional genomic analysis for non-model species with un-sequenced genomes such as longan.Results: Longan EC(embryogenic callus) cDNA library was sequenced by Illumina HiSeq2000. The total of 64,876,258 clean reads with 5.84 Gb nucleotides were assembled into 68,925 unigenes with mean length of 448 bp, and ≥1000 bp unigenes accounted for 8.26 %. Based on BLASTx, 40,634 unigenes had significant similarity with Nr and Swiss-Prot databases. 38,845 and 17,118 annotated unigenes were respectively assigned to GO categories with 43 sub-categories and COG group with 25 sub-groups. Additionally, 17,306 unigenes were assigned to 199 KEGG pathways, which were well represented by Metabolic pathways, Plant-pathogen interaction, Biosynthesis of secondary metabolites, and Genetic information processing. Analyses of the unigenes (≥1000 bp) revealed that not only as many as 328 unigenes concerning embryogenesis-related genes such as EMB, PPR, MEE but also many unigenes concerning reproductive growth such as flowering, gametophyte genesis and fertility, and vegetative growth such as root and shoot growth, expressed in EC, which differed remarkably from the in vivo embryogenesis reported before. Conclusions: This research firstly provided a global transcriptome dataset of longan EC. The results showed that the expressed genes of EC were that much and so various, which suggested that EC almost reflect the whole profile of S.E., even seem to be the epitome of the whole plant on the molecular level. In a word, this dataset provided a new insight into molecular mechanism of embryogenesis in longan even in other plants. | |||
TO cite this article:Lai Zhongxiong,Lin Yuling. Analyses of global transcriptomics and metabolic network on longan (Dimocarpus longan Lour.) embryogenic callus by Illumina paired-end sequencing[OL].[ 5 February 2012] http://en.paper.edu.cn/en_releasepaper/content/4465149 |
7. Selection of reliable reference genes for expression studies by reverse transcription quantitative real-time PCR in litchi under different experimental conditions | |||
ZHONG Haiying,CHEN Jianwen,LI Caiqin,WU Jianyang,CHEN Lei,CHEN Jianye,LU Wangjin,LI Jianguo | |||
Agronomy 21 March 2011 | |||
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Abstract:Reverse transcription quantitative real-time PCR (RT-qPCR), a sensitive technique for quantifying gene expression, depends on the stability of the reference gene(s) used for data normalization. Only a few studies on reference genes have been done in fruit trees and none in litchi. In the present work, seven frequently used candidate reference genes, including actin (ACTIN), glyceraldehyde-3-phosphate-dehydrogenase (GADPH), elongation factor 1-alpha (EF-1α), poly ubiquitin enzyme (UBQ), α-tubulin (TUA), β-tubulin (TUB) and RNA polymerase II transcription factor (RPII) were evaluated for their expression stability in litchi. Seventy-eight samples, including different varieties, tissues, organs, developmental stages and treatments, such as NAA, shading, and girdling plus defoliation, were addressed in this analysis. Our results showed that GAPDH was the most suitable reference gene among all the tested samples, different organs and NAA treatment. ACTIN was stably expressed in varieties and fruit developmental stages. RPII and UBQ exhibited the better expression stability in tissues. EF-1α was the most stable gene in shading and girdling plus defoliation treatments. Moreover, using combination of two genes as reference genes might improve the reliability of gene expression by RT-qPCR in litchi. The better combination was GAPDH + EF-1α or GAPDH + ACTIN for all the examined samples. In addition, the validated reference genes were further relied when used to quantify the expression of an interested gene, LcARF13 under different experimental conditions. These results firstly provide guidelines for reference genes selection under different experimental conditions and a foundation for more accurate and widespread use of RT-qPCR in litchi. | |||
TO cite this article:ZHONG Haiying,CHEN Jianwen,LI Caiqin, et al. Selection of reliable reference genes for expression studies by reverse transcription quantitative real-time PCR in litchi under different experimental conditions[OL].[21 March 2011] http://en.paper.edu.cn/en_releasepaper/content/4417495 |
8. Effect of Hot Water Treatment on the Inhibition of Anthracnose, PG, PME Activity and PGIP Gene Expression in Harvested Papaya Fruits | |||
Zhao Nan ,Li Xueping ,Chen Weixin ,Shi Jingying | |||
Agronomy 24 January 2009 | |||
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Abstract:The effect of hot water treatment on the inhibition of anthracnose, the activity of polygalacturonase (PG) and pectin methylesterase (PME), and polygalacturonase-inhibiting protein (PGIP) gene expression in harvested papaya fruits were studied. The incidence of anthracnose of harvested papaya fruits was reduced by appropriate hot water treatment. Immerging in hot water at 54 oC for 4 min showed an obvious effect on controlling postharvest decay in papaya fruits. The fruit ripening was found to be delayed, PG and PME activities were significantly inhibited, and PGIP gene expression was enhanced in hot water-treated papaya fruits. The results suggested that hot water treatment might induce the resistance of papaya fruits to anthracnose disease and extend the storage life. | |||
TO cite this article:Zhao Nan ,Li Xueping ,Chen Weixin , et al. Effect of Hot Water Treatment on the Inhibition of Anthracnose, PG, PME Activity and PGIP Gene Expression in Harvested Papaya Fruits[OL].[24 January 2009] http://en.paper.edu.cn/en_releasepaper/content/28308 |
9. Extraction of high quality of RNA and construction of a suppression subtractive hybridization (SSH) library from Trifoliate Orange ( Poncirus trifoliata ) | |||
Jin-Zhi Zhang,Zhi-Min Li,Jia-Ling Yao,chun-Gen Hu | |||
Agronomy 21 January 2009 | |||
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Abstract:To gain a better understanding of gene expression in early flowering trifoliate orange mutant (precocious trifoliate orange, Poncirus trifoliata), suppressive subtractive hybridization (SSH) and bioinformatics were applied to identify differentially expressed genes in precocious trifoliate orange. However, isolation of high quality RNA from buds, internodal shoots, and mature leaf tissues of trifoliate orange is difficult because of its high levels of polyphenols, polysaccharides and other secondary metabolites. An modified extraction procedure gave satisfactory results, proteinase K and high concentrations of β- mercaptoethanol were used in the extraction buffer to improve RNA quality and yeild. In addition, proteinase K involved in the procedure avoided badly injury caused by diethyl pyrocarbonate (DEPC), too. RNA isolated using above method was of sufficient quality for construction of suppression subtraction hybridization (SSH) library, which allowed the isolation of several early flowering ESTs. | |||
TO cite this article:Jin-Zhi Zhang,Zhi-Min Li,Jia-Ling Yao, et al. Extraction of high quality of RNA and construction of a suppression subtractive hybridization (SSH) library from Trifoliate Orange ( Poncirus trifoliata )[OL].[21 January 2009] http://en.paper.edu.cn/en_releasepaper/content/28174 |
10. Isolation and Characterization of Homolog PtLEAFY promoter in Trifoliate Orange (Poncirus trifoliata L. Raf. ) | |||
Mei Li,Zhang Jinzhi,Li Zhimin,Hu Chungen | |||
Agronomy 19 January 2009 | |||
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Abstract:Abstract The long juvenile phase for 6 to 8 years in woody plants has become a serious obstacle for genetic analysis and breeding practice. In order to understand the flower transition mechanism in woody plants, DNA sequence of a LEAFY homologue in trifoliate orange (Poncirus trifoliata L. Raf.) was isolated and characterized. A chimeric expression construct PtLEAFY::GUS indicated the promoter from woody plant acted its role in Arabidopsis thiliana from 7-day old shoot apical meristem to rosette leaves. These findings concluded that PtLEAFY promoter from woody plants had immediate function in annual plants and may potential provide the specific promoter of shoot apical meristem . | |||
TO cite this article:Mei Li,Zhang Jinzhi,Li Zhimin, et al. Isolation and Characterization of Homolog PtLEAFY promoter in Trifoliate Orange (Poncirus trifoliata L. Raf. )[OL].[19 January 2009] http://en.paper.edu.cn/en_releasepaper/content/28042 |
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