Abstract:
BACKGROUND:Most studies on the paper mulberry are mainly focused on the medicated and pharmacology, fiber quality, leaves feed development, little is known about its mechanism of adaptability to abiotic stress. Physiological measurement, transcriptomics and proteomic analysis were employed to understand its response to cold stress in this study. METHODS:The second to fourth fully expanded leaves from up to down were harvested at different stress time points forthe transmission electron microscope (TEM) observation. Physiological characteristics measurement included the relative electrolyte leakage (REL), SOD activity assay, soluble sugar content, and Chlorophyll fluorescence parameter measurement. For screening of differentially expressed genes, the expression level of every transcript in each sample was calculated by quantifying the number of Illumina reads. To identify the differentially expressed protein, leaves of plants under 0, 6, 12, 24, 48 and 72 h cold stress wereharvested for proteomic analysis. Finally, real time PCR was used to verify the DEG results of the RNA-seq and the proteomics data. RESULTS:Results showed that at the beginning of cold stress, respiratory metabolism was decreased and the transportation and hydrolysis of photosynthetic products was inhibited, leading to an accumulation of starch in the chloroplasts. Total of 5800 unigenes and 38 proteins were affected, including the repressed expression of photosynthesis and the enhanced expression in signal transduction, stress defense pathway as well as secondary metabolism. Although the transcriptional level of a large number of genes has been restored after 12 h, sustained cold stress brought more serious injury to the leaf cells, including the sharp rise of the relative electrolyte leakage, the declined Fv/Fm value, swelled chloroplast and the disintegrated membrane system. CONCLUSION:The starch accumulation and the photoinhibition might be the main adaptive mechanism of the paper mulberry responded to cold stress. Most of important, enhancing the transport and hydrolysis of photosynthetic products could be the potential targets for improving the cold tolerance of the paper mulberry.
journal_name
BMC Genomicsjournal_title
BMC genomicsauthors
Peng X,Teng L,Yan X,Zhao M,Shen Sdoi
10.1186/s12864-015-2047-6subject
Has Abstractpub_date
2015-11-05 00:00:00pages
898issn
1471-2164pii
10.1186/s12864-015-2047-6journal_volume
16pub_type
杂志文章相关文献
BMC GENOMICS文献大全abstract:BACKGROUND:Genotyping-by-sequencing (GBS) is becoming an attractive alternative to array-based methods for genotyping individuals for a large number of single nucleotide polymorphisms (SNPs). Costs can be lowered by reducing the mean sequencing depth, but this results in genotype calls of lower quality. A common analys...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-015-2252-3
更新日期:2015-12-09 00:00:00
abstract:BACKGROUND:Avian infectious bronchitis virus (IBV) is a gamma coronavirus that severely affects the poultry industry worldwide. Long non-coding RNAs (lncRNAs), a subset of non-coding RNAs with a length of more than 200 nucleotides, have been recently recognized as pivotal factors in the pathogenesis of viral infections...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-020-07359-3
更新日期:2021-01-20 00:00:00
abstract:BACKGROUND:Fluorescence of dyes bound to double-stranded PCR products has been utilized extensively in various real-time quantitative PCR applications, including post-amplification dissociation curve analysis, or differentiation of amplicon length or sequence composition. Despite the current era of whole-genome sequenc...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-9-544
更新日期:2008-11-17 00:00:00
abstract:BACKGROUND:Protein and mRNA levels for several selenoproteins, such as glutathione peroxidase-1 (Gpx1), are down-regulated dramatically by selenium (Se) deficiency. These levels in rats increase sigmoidally with increasing dietary Se and reach defined plateaus at the Se requirement, making them sensitive biomarkers for...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-12-26
更新日期:2011-01-12 00:00:00
abstract:BACKGROUND:Tumor angiogenesis is a highly regulated process involving intercellular communication as well as the interactions of multiple downstream signal transduction pathways. Disrupting one or even a few angiogenesis pathways is often insufficient to achieve sustained therapeutic benefits due to the complexity of a...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-9-264
更新日期:2008-06-02 00:00:00
abstract:BACKGROUND:Medicago truncatula has been chosen as a model species for genomic studies. It is closely related to an important legume, alfalfa. Transporters are a large group of membrane-spanning proteins. They deliver essential nutrients, eject waste products, and assist the cell in sensing environmental conditions by f...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-13-60
更新日期:2012-02-06 00:00:00
abstract:BACKGROUND:Whole mitogenomes or short fragments (i.e., 300-700 bp of the cox1 gene) are the markers of choice for revealing within- and among-species genealogies. Protocols for sequencing and assembling mitogenomes include 'primer walking' or 'long PCR' followed by Sanger sequencing or Illumina short-read low-coverage ...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-020-07292-5
更新日期:2020-12-09 00:00:00
abstract:BACKGROUND:The Pacific oyster Crassostrea gigas is an important fishery resource that is sensitive to temperature fluctuations. Thus, it has evolved a protection mechanism against heat stress by increasing the expression of the gene coding for heat shock protein (HSP) 70 under elevated temperatures. In other animals, h...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-019-6003-8
更新日期:2019-08-08 00:00:00
abstract:BACKGROUND:Soybean (Glycine max (L. Merr.)) resistance to any population of Heterodera glycines (I.), or Fusarium virguliforme (Akoi, O'Donnell, Homma & Lattanzi) required a functional allele at Rhg1/Rfs2. H. glycines, the soybean cyst nematode (SCN) was an ancient, endemic, pest of soybean whereas F. virguliforme caus...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-13-368
更新日期:2012-08-02 00:00:00
abstract:BACKGROUND:A high caloric diet, in conjunction with low levels of physical activity, promotes obesity. Many studies are available regarding the relation between dietary saturated fats and the etiology of obesity, but most focus on liver, muscle and white adipose tissue. Furthermore, the majority of transcriptomic studi...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-016-2424-9
更新日期:2016-02-09 00:00:00
abstract:BACKGROUND:Progress in genetics and breeding in pea still suffers from the limited availability of molecular resources. SNP markers that can be identified through affordable sequencing processes, without the need for prior genome reduction or a reference genome to assemble sequencing data would allow the discovery and ...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-016-2447-2
更新日期:2016-02-18 00:00:00
abstract:BACKGROUND:NGS data contains many machine-induced errors. The most advanced methods for the error correction heavily depend on the selection of solid k-mers. A solid k-mer is a k-mer frequently occurring in NGS reads. The other k-mers are called weak k-mers. A solid k-mer does not likely contain errors, while a weak k-...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-018-5272-y
更新日期:2018-12-31 00:00:00
abstract:BACKGROUND:Genomic characterization of rotavirus (RoV) has not been adopted at large-scale due to the complexity of obtaining sequences for all 11 segments, particularly when feces are used as starting material. METHODS:To overcome these limitations, we developed a novel RoV capture and genome sequencing method combin...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-017-3714-6
更新日期:2017-04-24 00:00:00
abstract:BACKGROUND:The Xklp2 (TPX2) proteins belong to the microtubule-associated (MAP) family of proteins. All members of the family contain the conserved TPX2 motif, which can interact with microtubules, regulate microtubule dynamics or assist with different microtubule functions, for example, maintenance of cell morphology ...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-016-3303-0
更新日期:2016-11-24 00:00:00
abstract:BACKGROUND:Maintaining maximum genetic diversity and preserving breed viability in conserved populations necessitates the rigorous evaluation of conservation schemes. Three chicken breeds (Baier Yellow Chicken (BEC), Beijing You Chicken (BYC) and Langshan Chicken (LSC)) are currently in conservation programs in China. ...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-018-4973-6
更新日期:2018-08-09 00:00:00
abstract:BACKGROUND:The tetraploid durum wheat (Triticum turgidum L. ssp. durum Desf. Husnot) is an important crop which provides the raw material for pasta production and a valuable source of genetic diversity for breeding hexaploid wheat (Triticum aestivum L.). Future breeding efforts to enhance yield potential and climate re...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-019-5645-x
更新日期:2019-04-10 00:00:00
abstract:BACKGROUND:The plastome of medicinal and endangered species in Kingdom of Saudi Arabia, Barleria prionitis was sequenced. The plastome was compared with that of seven Acanthoideae species in order to describe the plastome, spot the microsatellite, assess the dissimilarities within the sampled plastomes and to infer the...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-020-06798-2
更新日期:2020-06-06 00:00:00
abstract:BACKGROUND:The mosquito Anopheles gambiae is a major vector of human malaria. Increasing evidence indicates that blood cells (hemocytes) comprise an essential arm of the mosquito innate immune response against both bacteria and malaria parasites. To further characterize the role of hemocytes in mosquito immunity, we un...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-10-257
更新日期:2009-06-05 00:00:00
abstract:BACKGROUND:It has been shown that nearly a quarter of the initial predicted gene models in the Plasmodium falciparum genome contain errors. Although there have been efforts to obtain complete cDNA sequences to correct the errors, the coverage of cDNA sequences on the predicted genes is still incomplete, and many gene m...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-12-587
更新日期:2011-11-30 00:00:00
abstract:BACKGROUND:In mammalian cells changes in intracellular pH (pHi), which are predominantly controlled by activity of plasma membrane ion exchangers, regulate a diverse range of normal and pathological cellular processes. How changes in pHi affect distinct cellular processes has primarily been determined by evaluating pro...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-5-46
更新日期:2004-07-16 00:00:00
abstract:BACKGROUND:Computational methods that infer single nucleotide polymorphism (SNP) interactions from phenotype data may uncover new biological mechanisms in non-Mendelian diseases. However, practical aspects of such analysis face many problems. Present experimental studies typically use SNP arrays with hundreds of thousa...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-11-58
更新日期:2010-01-22 00:00:00
abstract:BACKGROUND:Papain-like cysteine proteases (PLCPs), a large group of cysteine proteases structurally related to papain, play important roles in plant development, senescence, and defense responses. Papain, the first cysteine protease whose structure was determined by X-ray crystallography, plays a crucial role in protec...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-017-4394-y
更新日期:2018-01-06 00:00:00
abstract:BACKGROUND:Electron microscopy analyses of replicating chloroplast molecules earlier predicted bidirectional Cairns replication as the prevalent mechanism, perhaps followed by rounds of a rolling circle mechanism. This standard model is being challenged by the recent proposition of homologous recombination-mediated rep...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-10-237
更新日期:2009-05-20 00:00:00
abstract:BACKGROUND:Sequencing data has become a standard measure of diverse cellular activities. For example, gene expression is accurately measured by RNA sequencing (RNA-Seq) libraries, protein-DNA interactions are captured by chromatin immunoprecipitation sequencing (ChIP-Seq), protein-RNA interactions by crosslinking immun...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-018-5362-x
更新日期:2019-01-05 00:00:00
abstract:BACKGROUND:One of the key characters of social insects is the division of labor, in which different tasks are allocated to various castes. In termites, one of the representative groups of social insects, morphological differences as well as behavioral differences can be recognized among castes. However, very little is ...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-11-314
更新日期:2010-05-20 00:00:00
abstract:BACKGROUND:The question of whether bacterial species objectively exist has long divided microbiologists. A major source of contention stems from the fact that bacteria regularly engage in horizontal gene transfer (HGT), making it difficult to ascertain relatedness and draw boundaries between taxa. A natural way to defi...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-018-5099-6
更新日期:2018-10-03 00:00:00
abstract:BACKGROUND:Malaria pathogenesis relies on sexual gametocyte forms of the malaria parasite to be transmitted between the infected human and the mosquito host but the molecular mechanisms controlling gametocytogenesis remains poorly understood. Here we provide a high-resolution transcriptome of Plasmodium falciparum as i...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-019-6322-9
更新日期:2019-12-03 00:00:00
abstract:BACKGROUND:Microarray data analysts commonly filter out genes based on a number of ad hoc criteria prior to any high-level statistical analysis. Such ad hoc approaches could lead to conflicting conclusions with no clear guidance as to which method is most likely to be reproducible. Furthermore, the number of tests perf...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-7-33
更新日期:2006-02-22 00:00:00
abstract:BACKGROUND:Chronic Allograft Nephropathy (CAN) is a clinical entity of progressive kidney transplant injury. The defining histology is tubular atrophy with interstitial fibrosis (IFTA). Using a meta-analysis of microarrays from 84 kidney transplant biopsies, we revealed growth factor and integrin adhesion molecule path...
journal_title:BMC genomics
pub_type: 杂志文章,meta分析
doi:10.1186/1471-2164-14-275
更新日期:2013-04-23 00:00:00
abstract:BACKGROUND:The phylum Platyhelminthes (flatworms) contains an important group of bilaterian organisms responsible for many debilitating and chronic infectious diseases of human and animal populations inhabiting the planet today. In addition to their biomedical and veterinary relevance, some platyhelminths are also freq...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-14-462
更新日期:2013-07-09 00:00:00