The cold responsive mechanism of the paper mulberry: decreased photosynthesis capacity and increased starch accumulation.


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.


BMC Genomics


BMC genomics


Peng X,Teng L,Yan X,Zhao M,Shen S




Has Abstract


2015-11-05 00:00:00










  • Transcriptomic and proteomic analyses of a new cytoplasmic male sterile line with a wild Gossypium bickii genetic background.

    abstract:BACKGROUND:Cotton is an important fiber crop but has serious heterosis effects, and cytoplasmic male sterility (CMS) is the major cause of heterosis in plants. However, to the best of our knowledge, no studies have investigated CMS Yamian A in cotton with the genetic background of Australian wild Gossypium bickii. Conj...

    journal_title:BMC genomics

    pub_type: 杂志文章


    authors: Zhao H,Wang J,Qu Y,Peng R,Magwanga RO,Liu F,Huang J

    更新日期:2020-12-02 00:00:00

  • Evidence for niche adaptation in the genome of the bovine pathogen Streptococcus uberis.

    abstract:BACKGROUND:Streptococcus uberis, a Gram positive bacterial pathogen responsible for a significant proportion of bovine mastitis in commercial dairy herds, colonises multiple body sites of the cow including the gut, genital tract and mammary gland. Comparative analysis of the complete genome sequence of S. uberis strain...

    journal_title:BMC genomics

    pub_type: 杂志文章


    authors: Ward PN,Holden MT,Leigh JA,Lennard N,Bignell A,Barron A,Clark L,Quail MA,Woodward J,Barrell BG,Egan SA,Field TR,Maskell D,Kehoe M,Dowson CG,Chanter N,Whatmore AM,Bentley SD,Parkhill J

    更新日期:2009-01-28 00:00:00

  • Benchmarking subcellular localization and variant tolerance predictors on membrane proteins.

    abstract:BACKGROUND:Membrane proteins constitute up to 30% of the human proteome. These proteins have special properties because the transmembrane segments are embedded into lipid bilayer while extramembranous parts are in different environments. Membrane proteins have several functions and are involved in numerous diseases. A ...

    journal_title:BMC genomics

    pub_type: 杂志文章


    authors: Orioli T,Vihinen M

    更新日期:2019-07-16 00:00:00

  • Evolutionary balance between LRR domain loss and young NBS-LRR genes production governs disease resistance in Arachis hypogaea cv. Tifrunner.

    abstract:BACKGROUND:Cultivated peanut (Arachis hypogaea L.) is an important oil and protein crop, but it has low disease resistance; therefore, it is important to reveal the number, sequence features, function, and evolution of genes that confer resistance. Nucleotide-binding site-leucine-rich repeats (NBS-LRRs) are resistance ...

    journal_title:BMC genomics

    pub_type: 杂志文章


    authors: Song H,Guo Z,Hu X,Qian L,Miao F,Zhang X,Chen J

    更新日期:2019-11-13 00:00:00

  • RNAseq analysis of Aspergillus fumigatus in blood reveals a just wait and see resting stage behavior.

    abstract:BACKGROUND:Invasive aspergillosis is started after germination of Aspergillus fumigatus conidia that are inhaled by susceptible individuals. Fungal hyphae can grow in the lung through the epithelial tissue and disseminate hematogenously to invade into other organs. Low fungaemia indicates that fungal elements do not re...

    journal_title:BMC genomics

    pub_type: 杂志文章


    authors: Irmer H,Tarazona S,Sasse C,Olbermann P,Loeffler J,Krappmann S,Conesa A,Braus GH

    更新日期:2015-08-27 00:00:00

  • InCoB celebrates its tenth anniversary as first joint conference with ISCB-Asia.

    abstract::In 2009 the International Society for Computational Biology (ISCB) started to roll out regional bioinformatics conferences in Africa, Latin America and Asia. The open and competitive bid for the first meeting in Asia (ISCB-Asia) was awarded to Asia-Pacific Bioinformatics Network (APBioNet) which has been running the I...

    journal_title:BMC genomics



    authors: Schönbach C,Tan TW,Kelso J,Rost B,Nathan S,Ranganathan S

    更新日期:2011-11-30 00:00:00

  • Unlocking the bovine genome.

    abstract::The draft genome sequence of cattle (Bos taurus) has now been analyzed by the Bovine Genome Sequencing and Analysis Consortium and the Bovine HapMap Consortium, which together represent an extensive collaboration involving more than 300 scientists from 25 different countries. ...

    journal_title:BMC genomics

    pub_type: 社论


    authors: Tellam RL,Lemay DG,Van Tassell CP,Lewin HA,Worley KC,Elsik CG

    更新日期:2009-04-24 00:00:00

  • Combining gene expression, demographic and clinical data in modeling disease: a case study of bipolar disorder and schizophrenia.

    abstract:BACKGROUND:This paper presents a retrospective statistical study on the newly-released data set by the Stanley Neuropathology Consortium on gene expression in bipolar disorder and schizophrenia. This data set contains gene expression data as well as limited demographic and clinical data for each subject. Previous studi...

    journal_title:BMC genomics

    pub_type: 杂志文章


    authors: Struyf J,Dobrin S,Page D

    更新日期:2008-11-07 00:00:00

  • The genomic architecture and association genetics of adaptive characters using a candidate SNP approach in boreal black spruce.

    abstract:BACKGROUND:The genomic architecture of adaptive traits remains poorly understood in non-model plants. Various approaches can be used to bridge this gap, including the mapping of quantitative trait loci (QTL) in pedigrees, and genetic association studies in non-structured populations. Here we present results on the geno...

    journal_title:BMC genomics

    pub_type: 杂志文章


    authors: Prunier J,Pelgas B,Gagnon F,Desponts M,Isabel N,Beaulieu J,Bousquet J

    更新日期:2013-06-01 00:00:00

  • The miRNAome of globe artichoke: conserved and novel micro RNAs and target analysis.

    abstract:BACKGROUND:Plant microRNAs (miRNAs) are involved in post-transcriptional regulatory mechanisms of several processes, including the response to biotic and abiotic stress, often contributing to the adaptive response of the plant to adverse conditions. In addition to conserved miRNAs, found in a wide range of plant specie...

    journal_title:BMC genomics

    pub_type: 杂志文章


    authors: De Paola D,Cattonaro F,Pignone D,Sonnante G

    更新日期:2012-01-24 00:00:00

  • Characterization of genome-wide segmental duplications reveals a common genomic feature of association with immunity among domestic animals.

    abstract:BACKGROUND:Segmental duplications (SDs) commonly exist in plant and animal genomes, playing crucial roles in genomic rearrangement, gene innovation and the formation of copy number variants. However, they have received little attention in most livestock species. RESULTS:Aiming at characterizing SDs across the genomes ...

    journal_title:BMC genomics

    pub_type: 杂志文章


    authors: Feng X,Jiang J,Padhi A,Ning C,Fu J,Wang A,Mrode R,Liu JF

    更新日期:2017-04-12 00:00:00

  • Structure and properties of transcriptional networks driving selenite stress response in yeasts.

    abstract:BACKGROUND:Stress responses provide valuable models for deciphering the transcriptional networks controlling the adaptation of the cell to its environment. We analyzed the transcriptome response of yeast to toxic concentrations of selenite. We used gene network mapping tools to identify functional pathways and transcri...

    journal_title:BMC genomics

    pub_type: 杂志文章


    authors: Salin H,Fardeau V,Piccini E,Lelandais G,Tanty V,Lemoine S,Jacq C,Devaux F

    更新日期:2008-07-15 00:00:00

  • ProSeeK: a web server for MLPA probe design.

    abstract:BACKGROUND:The technological evolution of platforms for detecting genome-wide copy number imbalances has allowed the discovery of an unexpected amount of human sequence that is variable in copy number among individuals. This type of human variation can make an important contribution to human diversity and disease susce...

    journal_title:BMC genomics

    pub_type: 杂志文章


    authors: Pantano L,Armengol L,Villatoro S,Estivill X

    更新日期:2008-11-28 00:00:00

  • Comparative DNA methylome analysis of endometrial carcinoma reveals complex and distinct deregulation of cancer promoters and enhancers.

    abstract:BACKGROUND:Aberrant DNA methylation is a hallmark of many cancers. Classically there are two types of endometrial cancer, endometrioid adenocarcinoma (EAC), or Type I, and uterine papillary serous carcinoma (UPSC), or Type II. However, the whole genome DNA methylation changes in these two classical types of endometrial...

    journal_title:BMC genomics

    pub_type: 杂志文章


    authors: Zhang B,Xing X,Li J,Lowdon RF,Zhou Y,Lin N,Zhang B,Sundaram V,Chiappinelli KB,Hagemann IS,Mutch DG,Goodfellow PJ,Wang T

    更新日期:2014-10-06 00:00:00

  • Small RNA and degradome deep sequencing reveal respective roles of cold-related microRNAs across Chinese wild grapevine and cultivated grapevine.

    abstract:BACKGROUND:Chinese wild grapevine (Vitis amurensis) has remarkable cold stress tolerance, exceeding that of the common cultivated grapevine (Vitis vinifera L.). RESULT:Here, we surveyed the expression dynamics of microRNAs (miRNAs) across Chinese wild grapevine (cv. Beibinghong) and cultivated grapevine (cv. Cabernet ...

    journal_title:BMC genomics

    pub_type: 杂志文章


    authors: Wang P,Yang Y,Shi H,Wang Y,Ren F

    更新日期:2019-10-15 00:00:00

  • Obesity-related known and candidate SNP markers can significantly change affinity of TATA-binding protein for human gene promoters.

    abstract:BACKGROUND:Obesity affects quality of life and life expectancy and is associated with cardiovascular disorders, cancer, diabetes, reproductive disorders in women, prostate diseases in men, and congenital anomalies in children. The use of single nucleotide polymorphism (SNP) markers of diseases and drug responses (i.e.,...

    journal_title:BMC genomics

    pub_type: 杂志文章


    authors: Arkova OV,Ponomarenko MP,Rasskazov DA,Drachkova IA,Arshinova TV,Ponomarenko PM,Savinkova LK,Kolchanov NA

    更新日期:2015-01-01 00:00:00

  • Strand bias structure in mouse DNA gives a glimpse of how chromatin structure affects gene expression.

    abstract:BACKGROUND:On a single strand of genomic DNA the number of As is usually about equal to the number of Ts (and similarly for Gs and Cs), but deviations have been noted for transcribed regions and origins of replication. RESULTS:The mouse genome is shown to have a segmented structure defined by strand bias. Transcriptio...

    journal_title:BMC genomics

    pub_type: 杂志文章


    authors: Evans KJ

    更新日期:2008-01-14 00:00:00

  • Global analysis of the ovarian microRNA transcriptome: implication for miR-2 and miR-133 regulation of oocyte meiosis in the Chinese mitten crab, Eriocheir sinensis (Crustacea:Decapoda).

    abstract:BACKGROUND:MicroRNAs (miRNAs) are small non-coding RNA molecules that downregulate gene expression by base pairing to the 3'-untranslated region (UTR) of target messenger RNAs (mRNAs). Up to now, rare information for the miRNAs is available in decapod crustaceans. Our previous studies showed that many miRNA-binding sit...

    journal_title:BMC genomics

    pub_type: 杂志文章


    authors: Song YN,Shi LL,Liu ZQ,Qiu GF

    更新日期:2014-07-01 00:00:00

  • Diverse histone modifications on histone 3 lysine 9 and their relation to DNA methylation in specifying gene silencing.

    abstract:BACKGROUND:Previous studies of individual genes have shown that in a self-enforcing way, dimethylation at histone 3 lysine 9 (dimethyl-H3K9) and DNA methylation cooperate to maintain a repressive mode of inactive genes. Less clear is whether this cooperation is generalized in mammalian genomes, such as mouse genome. He...

    journal_title:BMC genomics

    pub_type: 杂志文章


    authors: Wu J,Wang SH,Potter D,Liu JC,Smith LT,Wu YZ,Huang TH,Plass C

    更新日期:2007-05-24 00:00:00

  • A deconvolution method and its application in analyzing the cellular fractions in acute myeloid leukemia samples.

    abstract:BACKGROUND:The identification of cell type-specific genes (markers) is an essential step for the deconvolution of the cellular fractions, primarily, from the gene expression data of a bulk sample. However, the genes with significant changes identified by pair-wise comparisons cannot indeed represent the specificity of ...

    journal_title:BMC genomics

    pub_type: 杂志文章


    authors: Li H,Sharma A,Ming W,Sun X,Liu H

    更新日期:2020-09-23 00:00:00

  • Diet, gonadal sex, and sex chromosome complement influence white adipose tissue miRNA expression.

    abstract:BACKGROUND:MicroRNAs (miRNAs) are small non-coding RNA molecules that regulate gene expression by targeting specific mRNA species for degradation or interfering with translation. Specific miRNAs are key regulators of adipogenesis, and are expressed at different levels in adipose tissue from lean and obese mice. The deg...

    journal_title:BMC genomics

    pub_type: 杂志文章


    authors: Link JC,Hasin-Brumshtein Y,Cantor RM,Chen X,Arnold AP,Lusis AJ,Reue K

    更新日期:2017-01-17 00:00:00

  • Is chemically dispersed oil more toxic to Atlantic cod (Gadus morhua) larvae than mechanically dispersed oil? A transcriptional evaluation.

    abstract:BACKGROUND:The use of dispersants can be an effective way to deal with acute oil spills to limit environmental damage, however very little is known about whether chemically dispersed oil have the same toxic effect on marine organisms as mechanically dispersed oil. We exposed Atlantic cod larvae to chemically and mechan...

    journal_title:BMC genomics

    pub_type: 杂志文章


    authors: Olsvik PA,Lie KK,Nordtug T,Hansen BH

    更新日期:2012-12-14 00:00:00

  • Analysis of salivary transcripts and antigens of the sand fly Phlebotomus arabicus.

    abstract:BACKGROUND:Sand fly saliva plays an important role in blood feeding and Leishmania transmission as it was shown to increase parasite virulence. On the other hand, immunity to salivary components impedes the establishment of infection. Therefore, it is most desirable to gain a deeper insight into the composition of sali...

    journal_title:BMC genomics

    pub_type: 杂志文章


    authors: Hostomská J,Volfová V,Mu J,Garfield M,Rohousová I,Volf P,Valenzuela JG,Jochim RC

    更新日期:2009-06-25 00:00:00

  • A UML profile for the OBO relation ontology.

    abstract:BACKGROUND:Ontologies have increasingly been used in the biomedical domain, which has prompted the emergence of different initiatives to facilitate their development and integration. The Open Biological and Biomedical Ontologies (OBO) Foundry consortium provides a repository of life-science ontologies, which are develo...

    journal_title:BMC genomics

    pub_type: 杂志文章


    authors: Guardia GD,Vêncio RZ,de Farias CR

    更新日期:2012-01-01 00:00:00

  • Generation of a reference transcriptome for evaluating rainbow trout responses to various stressors.

    abstract:BACKGROUND:Fish under intensive culture conditions are exposed to a variety of acute and chronic stressors, including high rearing densities, sub-optimal water quality, and severe thermal fluctuations. Such stressors are inherent in aquaculture production and can induce physiological responses with adverse effects on t...

    journal_title:BMC genomics

    pub_type: 杂志文章


    authors: Sánchez CC,Weber GM,Gao G,Cleveland BM,Yao J,Rexroad CE 3rd

    更新日期:2011-12-21 00:00:00

  • Mitochondrial lineage M1 traces an early human backflow to Africa.

    abstract:BACKGROUND:The out of Africa hypothesis has gained generalized consensus. However, many specific questions remain unsettled. To know whether the two M and N macrohaplogroups that colonized Eurasia were already present in Africa before the exit is puzzling. It has been proposed that the east African clade M1 supports a ...

    journal_title:BMC genomics

    pub_type: 杂志文章


    authors: González AM,Larruga JM,Abu-Amero KK,Shi Y,Pestano J,Cabrera VM

    更新日期:2007-07-09 00:00:00

  • Comparative analysis of neural transcriptomes and functional implication of unannotated intronic expression.

    abstract:BACKGROUND:The transcriptome and its regulation bridge the genome and the phenome. Recent RNA-seq studies unveiled complex transcriptomes with previously unknown transcripts and functions. To investigate the characteristics of neural transcriptomes and possible functions of previously unknown transcripts, we analyzed a...

    journal_title:BMC genomics

    pub_type: 杂志文章


    authors: Sun Y,Wang Y,Hu Y,Chen G,Ma H

    更新日期:2011-10-10 00:00:00

  • Transcriptomic analyses of Aedes aegypti cultured cells and ex vivo midguts in response to an excess or deficiency of heme: a quest for transcriptionally-regulated heme transporters.

    abstract:BACKGROUND:Aedes aegypti is the principle vector of many arboviruses, including dengue virus and Zika virus, which are transmitted when an infected female mosquito takes a blood meal in order to initiate vitellogenesis. During blood digestion, ~ 10 mM heme-iron is ingested into the midgut lumen. While heme acts as both...

    journal_title:BMC genomics

    pub_type: 杂志文章


    authors: Eggleston H,Adelman ZN

    更新日期:2020-08-31 00:00:00

  • MicroRNA modulate alveolar epithelial response to cyclic stretch.

    abstract:BACKGROUND:MicroRNAs (miRNAs) are post-transcriptional regulators of gene expression implicated in multiple cellular processes. Cyclic stretch of alveoli is characteristic of mechanical ventilation, and is postulated to be partly responsible for the lung injury and inflammation in ventilator-induced lung injury. We pro...

    journal_title:BMC genomics

    pub_type: 杂志文章


    authors: Yehya N,Yerrapureddy A,Tobias J,Margulies SS

    更新日期:2012-04-26 00:00:00

  • Gene silencing pathways found in the green alga Volvox carteri reveal insights into evolution and origins of small RNA systems in plants.

    abstract:BACKGROUND:Volvox carteri (V. carteri) is a multicellular green alga used as model system for the evolution of multicellularity. So far, the contribution of small RNA pathways to these phenomena is not understood. Thus, we have sequenced V. carteri Argonaute 3 (VcAGO3)-associated small RNAs from different developmental...

    journal_title:BMC genomics

    pub_type: 杂志文章


    authors: Dueck A,Evers M,Henz SR,Unger K,Eichner N,Merkl R,Berezikov E,Engelmann JC,Weigel D,Wenzl S,Meister G

    更新日期:2016-11-02 00:00:00