Abstract:
:Tuber mustard (Brassica juncea (L.) Czern. et Coss. var. tumida Tsen et Lee) is an important vegetable crop with a characteristic of expanded stem that is edible. The underlying molecular mechanism of the stem expansion is not well understood. Here, we reported that a total of 51 differentially expressed fragments (DEFs) with three expression patterns during stem expansion of tuber mustard were identified by cDNA-AFLP analysis. Among the DEFs, DEF11 with high homology to Arabidopsis thaliana apyrase 2 (AtAPY2) that encodes an enzyme with ATPase and ADPase activity was development- and tissue-specific. DEF11 was thus renamed as BjAPY2. The expression levels of BjAPY2 increased with the stem expression and were the highest at stage IV, a developmental stage at which the stem expanded most rapidly. In contrast, the BjAPY2 expression levels in leaves were much lower and remained unchanged during leaf development and expansion, suggesting that BjAPY2 was closely associated with the expansion of stems but not of leaves in the tuber mustard. Interestingly, the expression of BjAPY2 was higher in the mustard under short-day (SD) photoperiod (8 h/16 h) than that under long-day (LD) photoperiod (16 h/8 h); similarly, the transcript levels of BjAPY2 were higher in the mustard grown at low temperature (14 °C/12 °C) than that at high temperature (26 °C /24 °C). The SD photoperiod and low temperature were two environmental conditions that favored the mustard stem expansion. Further cloning and analysis of the promoter region of BjAPY2 revealed that there were indeed several types of motifs in the promoter region, including the light and temperature responsive elements. These results suggested that BjAPY2 might play an important role during the stem expansion of the tuber mustard.
journal_name
Funct Integr Genomicsjournal_title
Functional & integrative genomicsauthors
Cao L,Liu B,Li J,Yu N,Zou X,Chen Ldoi
10.1007/s10142-015-0458-8subject
Has Abstractpub_date
2015-11-01 00:00:00pages
753-62issue
6eissn
1438-793Xissn
1438-7948pii
10.1007/s10142-015-0458-8journal_volume
15pub_type
杂志文章abstract::MicroRNAs (miRNAs) play a pivotal role in post-transcriptional regulation of gene expression in plants. In this study, we investigate miRNAs in an agronomically important common tobacco in China, named Honghua Dajinyuan (a drought-tolerant cultivar). Here, we report a comprehensive analysis of miRNA expression profile...
journal_title:Functional & integrative genomics
pub_type: 杂志文章
doi:10.1007/s10142-014-0365-4
更新日期:2014-06-01 00:00:00
abstract::Natural selection drives species adaptations to biotic and abiotic stresses. Species distributed along a moisture gradient, such as Stipa purpurea, a dominant grass in alpine arid and semi-arid meadows on the Tibetan Plateau, provide an opportunity to evaluate the effects of long-term adaptation to differing degrees o...
journal_title:Functional & integrative genomics
pub_type: 杂志文章
doi:10.1007/s10142-014-0419-7
更新日期:2015-05-01 00:00:00
abstract::Stem blister canker, caused by Botryosphaeria dothidea, is becoming the most serious disease of poplar in China. The molecular basis of the poplar in response to stem blister canker is not well understood. To reveal the global transcriptional changes of poplar to infection by B. dothidea, Solexa paired-end sequencing ...
journal_title:Functional & integrative genomics
pub_type: 杂志文章
doi:10.1007/s10142-014-0379-y
更新日期:2014-09-01 00:00:00
abstract::Gastrointestinal nematodes of the genus Cooperia are arguably the most important parasites of cattle. The bovine jejunal transcriptome was characterized in response to Cooperia oncophora infection using RNA-seq technology. Approximately 71% of the 25,670 bovine genes were detected in the jejunal transcriptome. However...
journal_title:Functional & integrative genomics
pub_type: 杂志文章
doi:10.1007/s10142-011-0259-7
更新日期:2012-03-01 00:00:00
abstract::Fungal species are potential dye decomposers since these secrete spectra of extracellular enzymes involved in catabolism. However, cellular mechanisms underlying azo dye catalysis and detoxification are incompletely understood and obscure. A potential strain designated as Penicillium oxalicum SAR-3 demonstrated broad-...
journal_title:Functional & integrative genomics
pub_type: 杂志文章
doi:10.1007/s10142-014-0405-0
更新日期:2014-12-01 00:00:00
abstract::MicroRNAs, small regulatory molecules with significant impacts on the transcriptional network of all living organisms, have been the focus of several studies conducted mostly on modern wheat cultivars. In this study, we investigated miRNA repertoires of modern durum wheat and its wild relatives, with differing degrees...
journal_title:Functional & integrative genomics
pub_type: 杂志文章
doi:10.1007/s10142-015-0453-0
更新日期:2015-09-01 00:00:00
abstract::In grapes (Vitis vinifera L.), exogenous gibberellic acid (GA3) is applied at different stages of bunch development to achieve desirable bunch shape and berry size in seedless grapes used for table purpose. RNA sequence-based transcriptome analysis was used to understand the mechanism of GA3 action at cluster emergenc...
journal_title:Functional & integrative genomics
pub_type: 杂志文章
doi:10.1007/s10142-018-0605-0
更新日期:2018-07-01 00:00:00
abstract::The expression of many genes encoding transcriptional activators in prokaryotes and eukaryotes is upregulated through positive feedback activation. During positive feedback activation, a transcriptional activator binds to its own promoter and thus increases its own expression as well as the expression of its target ge...
journal_title:Functional & integrative genomics
pub_type: 杂志文章
doi:10.1007/s101420000001
更新日期:2000-05-01 00:00:00
abstract::The proneness of diseases and susceptibility towards drugs vary from person to person. At present, there is a strong demand for the personalization of drugs. The genetic signature behind proneness of the disease has been studied through a comprehensive 'octopodial approach'. All the genetic variants included in the ap...
journal_title:Functional & integrative genomics
pub_type: 杂志文章
doi:10.1007/s10142-017-0559-7
更新日期:2017-07-01 00:00:00
abstract::Recent updates in comparative genomics among cereals have provided the opportunity to identify conserved orthologous set (COS) DNA sequences for cross-genome map-based cloning of candidate genes underpinning quantitative traits. New tools are described that are applicable to any cereal genome of interest, namely, alig...
journal_title:Functional & integrative genomics
pub_type: 杂志文章
doi:10.1007/s10142-009-0129-8
更新日期:2009-11-01 00:00:00
abstract::Culex pipiens mosquitoes are important disease vectors inhabiting temperate zones, worldwide. The seasonal reduction in temperature and photoperiod accompanying late summer and early fall prompts female mosquitoes to enter diapause, a stage of developmental arrest and physiological conditioning that enhances survival ...
journal_title:Functional & integrative genomics
pub_type: 杂志文章
doi:10.1007/s10142-015-0432-5
更新日期:2015-07-01 00:00:00
abstract::The assembly of a 1.3-Mb size region of the wheat genome has provided the opportunity to study a recent nuclear mitochondrial DNA insertion (NUMT). In the present study, we have studied two bacterial artificial chromosomes (BACs) and characterized a 52-kb NUMT segment from the tetraploid and hexaploid wheat BAC librar...
journal_title:Functional & integrative genomics
pub_type: 杂志文章
doi:10.1007/s10142-011-0237-0
更新日期:2011-12-01 00:00:00
abstract::Bread wheat (Triticum aestivum L.) is one of the most important crops globally and a high priority for genetic improvement, but its large and complex genome has been seen as intractable to whole genome sequencing. Isolation of individual wheat chromosome arms has facilitated large-scale sequence analyses. However, so ...
journal_title:Functional & integrative genomics
pub_type: 杂志文章
doi:10.1007/s10142-011-0250-3
更新日期:2012-03-01 00:00:00
abstract::As the amino acid storing organelle, the protein bodies provide nutrients for embryo development, seed germination and early seedling growth through storage proteolysis in cereal plants, such as wheat and rice. In protein bodies, the monomeric and polymeric prolamins, i.e. gliadins and glutenins, form gluten and play ...
journal_title:Functional & integrative genomics
pub_type: 杂志文章,评审
doi:10.1007/s10142-010-0196-x
更新日期:2011-03-01 00:00:00
abstract::Abiotic stress tolerance is a complex trait regulated by multiple genes and gene networks in plants. A range of abiotic stresses are known to limit rice productivity. Meta-transcriptomics has emerged as a powerful approach to decipher stress-associated molecular network in model crops. However, retaining specificity o...
journal_title:Functional & integrative genomics
pub_type: 杂志文章,meta分析
doi:10.1007/s10142-019-00697-w
更新日期:2020-01-01 00:00:00
abstract::Jatropha curcas is a new promising bioenergy crop due to the high oil content in its seeds that can be converted into biodiesel. Seed size, a major determinant of Jatropha oil yield, is a target trait for Jatropha breeding. Due to the vital roles of phytohormone auxin in controlling seed and fruit development, we scre...
journal_title:Functional & integrative genomics
pub_type: 杂志文章
doi:10.1007/s10142-014-0400-5
更新日期:2014-12-01 00:00:00
abstract::Aldo/keto reductases (AKRs) constitute a multitasking protein family that catalyzes diverse metabolic transformations including detoxification of stress generated reactive aldehydes. Yet this important protein family is poorly understood particularly in cyanobacteria, the ecologically most diverse and significant grou...
journal_title:Functional & integrative genomics
pub_type: 杂志文章
doi:10.1007/s10142-017-0547-y
更新日期:2017-07-01 00:00:00
abstract::Control of proteolysis is important for plant growth, development, responses to stress, and defence against insects and pathogens. Members of the serpin protein family are likely to play a critical role in this control through irreversible inhibition of endogenous and exogenous target proteinases. Serpins have been fo...
journal_title:Functional & integrative genomics
pub_type: 杂志文章,评审
doi:10.1007/s10142-007-0059-2
更新日期:2008-02-01 00:00:00
abstract::Drought is a major abiotic stress affecting crop productivity and quality. As a class of noncoding RNA, microRNA (miRNA) plays important roles in plant growth, development, and stress response. However, their response and roles in tomato drought stress is largely unknown. Here, by using high-throughput sequencing, we ...
journal_title:Functional & integrative genomics
pub_type: 杂志文章
doi:10.1007/s10142-017-0575-7
更新日期:2018-01-01 00:00:00
abstract::MicroRNAs (miRNAs) are small RNAs (sRNAs) that regulate gene expression in development and adaptive responses to the environment. The early days in the sRNA field was one of the most exciting and promising moments in modern biology, attracting large investments to the understanding of the underlining mechanisms and th...
journal_title:Functional & integrative genomics
pub_type: 杂志文章,评审
doi:10.1007/s10142-016-0513-0
更新日期:2017-05-01 00:00:00
abstract::The root-knot nematode Meloidogyne incognita is among the most damaging plant-parasitic pests of several crops including cotton (Gossypium hirsutum) and tomato (Lycopersicon escultentum). Recently, a genome has become available for M. incognita, which greatly facilitates investigation of the interactions between M. in...
journal_title:Functional & integrative genomics
pub_type: 杂志文章
doi:10.1007/s10142-015-0472-x
更新日期:2016-03-01 00:00:00
abstract::The IbeA (ibe10) gene is an invasion determinant contributing to E. coli K1 invasion of the blood-brain barrier. This gene has been cloned and characterized from the chromosome of an invasive cerebrospinal fluid isolate of E. coli K1, strain RS218 (018:K1: H7). In the present study, a genetic island of meningitic E. c...
journal_title:Functional & integrative genomics
pub_type: 杂志文章
doi:10.1007/s101420100039
更新日期:2001-09-01 00:00:00
abstract::GRAS domain genes are a group of important plant-specific transcription factors that have been reported to be involved in plant development. In order to know the roles of GRAS genes in grapevine, a widely cultivated fruit crop, the study on grapevine GRAS (VvGRAS) was carried out, and from which, 43 were identified fr...
journal_title:Functional & integrative genomics
pub_type: 杂志文章
doi:10.1007/s10142-016-0479-y
更新日期:2016-07-01 00:00:00
abstract::Carefully analyzed expression profiles can serve as a valuable reference for deciphering gene functions. We exploited the potential of whole genome microarrays to measure the spatial and temporal expression profiles of rice genes in 19 stages of vegetative and reproductive development. We could verify expression of 22...
journal_title:Functional & integrative genomics
pub_type: 杂志文章
doi:10.1007/s10142-012-0274-3
更新日期:2012-06-01 00:00:00
abstract::Genomic structural variation is an important and abundant source of genetic and phenotypic variation. We previously reported an initial analysis of copy number variations (CNVs) in Angus cattle selected for resistance or susceptibility to gastrointestinal nematodes. In this study, we performed a large-scale analysis o...
journal_title:Functional & integrative genomics
pub_type: 杂志文章
doi:10.1007/s10142-011-0252-1
更新日期:2012-03-01 00:00:00
abstract::The ATP-binding cassette (ABC) transporters are a large family of proteins responsible for the translocation of a variety of compounds across the membranes of both prokaryotes and eukaryotes. The inter-protein and intra-protein interactions in these traffic ATPases are still only poorly understood. In the present stud...
journal_title:Functional & integrative genomics
pub_type: 杂志文章
doi:10.1007/s10142-001-0040-4
更新日期:2002-04-01 00:00:00
abstract::Comparative genomic analysis is the cornerstone of in silico-based approaches to understanding biological systems and processes across cereal species, such as rice, wheat and barley, in order to identify genes of agronomic interest. The size of the genomic repositories is nearly doubling every year, and this has signi...
journal_title:Functional & integrative genomics
pub_type: 杂志文章,评审
doi:10.1007/s10142-004-0102-5
更新日期:2004-03-01 00:00:00
abstract::In the past decade, there has been an intense effort to comprehensively catalogue the expressed genes in the yeast Saccharomyces cerevisiae and to determine the absolute and relative abundance of transcript and protein levels under different cellular conditions. Several methods have been developed to monitor gene expr...
journal_title:Functional & integrative genomics
pub_type: 杂志文章,评审
doi:10.1007/s10142-002-0065-3
更新日期:2002-09-01 00:00:00
abstract::Intronless genes, a characteristic feature of prokaryotes, constitute a significant portion of the eukaryotic genomes. Our analysis revealed the presence of 11,109 (19.9%) and 5,846 (21.7%) intronless genes in rice and Arabidopsis genomes, respectively, belonging to different cellular role and gene ontology categories...
journal_title:Functional & integrative genomics
pub_type: 杂志文章
doi:10.1007/s10142-007-0052-9
更新日期:2008-02-01 00:00:00
abstract::The response of a grass halophyte Spartina alterniflora at early stages of salt stress was investigated through generation and systematic analysis of expressed sequence tags (ESTs) from both leaf and root tissues. Random EST sequencing produced 1,227 quality ESTs, which were clustered into 127 contigs, and 368 were si...
journal_title:Functional & integrative genomics
pub_type: 杂志文章
doi:10.1007/s10142-008-0075-x
更新日期:2008-08-01 00:00:00