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Genome Génome / Conseil National de Recherches Canada

Xiaofeng Cai, Lihao Lin, Xiaoli Wang, Chenxi Xu, Quanhua Wang
Spinach (Spinacia oleracea L.) is widely cultivated as an economically important green leafy vegetable crop for fresh and processing consumption. The red purple spinach shows abundant anthocyanin accumulation in the leaf and leaf petiole. However, the molecular mechanisms of anthocyanin synthesis in this species are still undetermined. In the present study, we investigated the pigments formation and identified anthocyanin biosynthetic genes in spinach, and performed the expression analysis of anthocyanin related genes in the purple and green cultivar by quantitative PCR...
May 22, 2018: Genome Génome / Conseil National de Recherches Canada
Yu Cui, Yanping Zhang, Juan Qi, H Wang, Richard R-C Wang, Yinguang Bao, Xing-Feng Li
Synthesized oligonucleotides (oligos) can be used as effective probes similar to plasmid clones for chromosome identification in fluorescence in situ hybridization (FISH) analysis, making oligo FISH a simpler and more efficient molecular cytogenetic technique for studying plants. In this study, multiplex oligonucleotide probes, including pSc119.2-1, pAs1-4, (GAA)10, (AAC)6 and pTa71, were combined and used in FISH to identify chromosomes in common wheat, Thinopyrum intermedium and a wheat-Th. intermedium amphiploid TE256-1...
May 8, 2018: Genome Génome / Conseil National de Recherches Canada
Jun Zhao, Xueqin Tang, Charlene P Wight, Nicholas A Tinker, Yunfeng Jiang, Honghai Yan, Jian Ma, Xiu-Jin Lan, Yu-Ming Wei, Changzhong Ren, Guoyue Chen, Yuanying Peng
Short straw is a desired trait in cultivated hexaploid oat (Avena sativa L.) for some production environments. Marker-assisted selection, a key tool for achieving this objective, is limited by a lack of mapping data and available markers. Here, bulked-segregant analysis was used to identify PCR-based markers associated with a dwarfing gene. Genetic analysis identified a monogenic dominant inheritance of one dwarfing gene from WAOAT2132, temporarily designated DwWA. A simple sequence repeat (SSR) marker (AME117) that was already available and a new codominant PCR-based marker (bi17) developed by homologous cloning in the present study were both associated with the dwarfing gene...
May 7, 2018: Genome Génome / Conseil National de Recherches Canada
Min Zhang, Xin-Kai Liu, Wen Fan, Dan-Feng Yan, Nai-Sheng Zhong, Ji-Yin Gao, Wen-Ju Zhang
The combination of two divergent genomes during hybridization can result in "genome shock". Though genome shock has been reported in the hybrids of some herbaceous plants, the pattern and the principle it follows are far from understood, especially in woody plants. Here, the gene expression patterns were remodeled in the F1 hybrid from the crossing of Camellia azalea × C. amplexicaulis compared with the parents as revealed by RNA-seq. About 54.5% of all unigenes were differentially expressed between the F1 hybrid and at least one of the parents, including 6,404 unigenes with the highest expression level in the F1 hybrid...
May 2, 2018: Genome Génome / Conseil National de Recherches Canada
Shangguo Feng, Kaili Jiao, Yujia Zhu, Hongfen Wang, Mengying Jiang, Huizhong Wang
No abstract text is available yet for this article.
April 27, 2018: Genome Génome / Conseil National de Recherches Canada
Maxime Bastien, Chiheb Boudhrioua, Gabrielle Fortin, François Belzile
Genotyping-by-sequencing (GBS) potentially offers a cost-effective alternative for SNP discovery and genotyping. Here, we report the exploration of GBS in tetraploid potato. Both ApeKI and PstI/MspI enzymes were used for library preparation on eight diverse potato genotypes. ApeKI yielded more markers than PstI/MspI but provided a lower read coverage per marker, resulting in more missing data and limiting effective genotyping to the tetraploid mode. We then assessed the accuracy of these SNPs by comparison with SolCAP data (5,824 data points in diploid mode and 3,243 data points in tetraploid mode) and found the match rates between genotype calls was 90...
April 24, 2018: Genome Génome / Conseil National de Recherches Canada
Stephanie Sarmiento-Camacho, Martha Valdez-Moreno
The substitution of high-value fish species for those of lower value is common practice. Although numerous studies have addressed this issue, few have been conducted in Mexico. In this study, we sought to identify fresh fillets of fish, sharks, and rays using DNA barcodes. We analyzed material from "La Viga" in Mexico City, and other markets located on the Gulf and Caribbean coasts of Mexico. From 134 samples, we obtained sequences from 129, identified to nine orders, 28 families, 38 genera, and 44 species...
April 24, 2018: Genome Génome / Conseil National de Recherches Canada
Chao Liu, Mingbo Wang, Lingli Wang, Qigao Guo, Guolu Liang
We aim to overcome the unclear origin of the loquat and elucidating the heterosis mechanism of the triploid loquat. Here we investigated the genetic and epigenetic variations between the triploid plant and its parental lines using amplified fragment length polymorphism (AFLP) and methylation-sensitive amplified fragment length polymorphism (MSAP) analyses. We show that in addition to genetic variations, extensive DNA methylation variation occurred during the formation process of triploid loquat, with the triploid hybrid having increased DNA methylation compared to the parents...
April 24, 2018: Genome Génome / Conseil National de Recherches Canada
Shruti Choudhary, Sapna Thakur, Raoof Ahmad Najar, Aasim Majeed, Amandeep Singh, Pankaj Bhardwaj
Rhododendron arboreum, an ecologically prominent species, also lends commercial and medicinal benefits in the form of palatable juices and useful herbal-drugs. The local abundance and survival of the species under highly fluctuating climate make it an ideal model for genetic structure and functional analysis. However, a lack of genomic data has hampered the additional research. In the present study, cDNA libraries from floral and foliar tissues of the species were sequenced to provide a foundation for understanding the functional aspects of the genome and to construct an enriched repository that will promote genomics studies in the genera...
April 15, 2018: Genome Génome / Conseil National de Recherches Canada
Sébastien Bélanger, Stéphanie Paquet-Marceau, Juan Enrique Díaz Lago, François Belzile
In barley, semi-dwarf varieties are attractive for their superior harvest index and lodging resistance, but many semi-dwarf barley genotypes suffer from poor spike emergence. We performed a genetic characterization of a semi-dwarf line (ND23049) that combines short stature, strong stiff culms and adequate spike emergence. We developed a doubled haploid (DH) population derived by crossing ND23049 and the cultivar CLE253. A subset of 88 DH lines and parents were characterized for plant height in 2013 and 2014 and genotyped...
April 15, 2018: Genome Génome / Conseil National de Recherches Canada
Bin Zhang, Hanlin Qiu, Donghai Qu, Ying Ruan, Dong-Hong Chen
HSP40s or DnaJ/J-proteins are evolutionarily conserved in all the organisms as cochaperones of molecular chaperone HSP70s that mainly participate in maintaining cellular protein homeostasis, such as protein folding, assembly, stabilization, and translocation under normal conditions as well as refolding and degradation under environmental stresses. It has been reported that Arabidopsis J-proteins are classified into four classes (type A~D) according to domain organization, but their phylogenetic relationships are unknown...
April 5, 2018: Genome Génome / Conseil National de Recherches Canada
Yanchun You, Miao Xie, Liette Vasseur, Minsheng You
Gene expression analysis provides important clues regarding gene functions, and quantitative real-time PCR (qRT-PCR) is a widely-used method for gene expression studies. Reference genes are essential for normalizing and accurately assessing gene expressions. In the present study, 16 candidate reference genes (<i>ACTB</i>, <i>CyPA</i>, <i>EF1-α</i>, <i>GAPDH</i>, <i>HSP90</i>, <i>NDPk</i>, <i>RPL13a</i>, <i>RPL18</i>, <i>RPL19</i>, <i>RPL32</i>, <i>RPL4</i>, <i>RPL8</i>, <i>RPS13</i>, <i>RPS4</i>, <i>α-TUB</i> and <i>β-TUB</i>) of <i>Plutella xylostella</i> were selected to evaluate their gene expression stability across different experimental conditions using five statistical algorithms (geNorm, NormFinder, Delta Ct method, BestKeeper and RefFinder)...
April 5, 2018: Genome Génome / Conseil National de Recherches Canada
Ziang Li, Yunfei Bi, Xing Wang, Yun-Zhu Wang, Shu-Qiong Yang, Zhentao Zhang, Jin-Feng Chen, Qun-Feng Lou
Cucumis anguria is a potential genetic resource for improving Cucumis crops due to its broad-spectrum resistance. Few cytogenetic studies on C. anguria have been reported because of its small metaphase chromosomes and the scarcity of distinguished chromosomal landmarks. In this study, fourteen single copy genes from cucumber and rDNAs were used as probes for FISH to identify individual chromosomes of C. anguria. The distinctive signal distribution patterns of the probes allowed us to distinguish each chromosome of C...
April 3, 2018: Genome Génome / Conseil National de Recherches Canada
María-Dolores Rey, Graham Moore, Azahara C Martín
Karyotypes of three accessions of Hordeum chilense (H1, H16, and H7), Hordeum vulgare, and Triticum aestivum were characterized by physical mapping of several repetitive sequences. A total of 14 repetitive sequences were used as probes for fluorescence in situ hybridization (FISH) with the aim of identifying inter- and intraspecies polymorphisms. The (AG)12 and 4P6 probes only produced hybridization signals in wheat, the BAC7 probe only hybridized to the centromeric region of H. vulgare, and the pSc119.2 probe hybridized to both wheat and H...
March 15, 2018: Genome Génome / Conseil National de Recherches Canada
Antony T Vincent, Steve J Charette, Jean Barbeau
The Gram-negative bacterium Pseudomonas aeruginosa is found in several habitats, both natural and human-made, and is particularly known for its recurrent presence as a pathogen in the lungs of patients suffering from cystic fibrosis, a genetic disease. Given its clinical importance, several major studies have investigated the genomic adaptation of P. aeruginosa in lungs and its transition as acute infections become chronic. However, our knowledge about the diversity and adaptation of the P. aeruginosa genome to non-clinical environments is still fragmentary, in part due to the lack of accurate reference genomes of strains from the numerous environments colonized by the bacterium...
May 2018: Genome Génome / Conseil National de Recherches Canada
Alasdair T M Hubbard, Sian E W Davies, Laura Baxter, Sarah Thompson, Mark M Collery, Daniel C Hand, D John I Thomas, Colin G Fink
Comparison of the genome of the Gram negative human pathogen Haemophilus quentini MP1 with other species of Haemophilus revealed that, although it is more closely related to Haemophilus haemolyticus than Haemophilus influenzae, the pathogen is in fact genetically distinct, a finding confirmed by phylogenetic analysis using the H. influenzae multilocus sequence typing genes. Further comparison with two other H. quentini strains recently identified in Canada revealed that these three genomes are more closely related than any other species of Haemophilus; however, there is still some sequence variation...
May 2018: Genome Génome / Conseil National de Recherches Canada
Genevieve Laperriere, Isabel Desgagné-Penix, Hugo Germain
Lobster mushroom is a wild edible mushroom with potential commercial value. It is the product resulting of the infection, most commonly of Russula brevipes, by Hypomyces lactifluorum. This study undertook quantitative polymerase chain reaction analysis of tissues sampled at different infection stages to investigate R. brevipes - H. lactifluorum interaction. We followed the colonization of R. brevipes sporocarps by H. lactifluorum that leads to the edible lobster mushrooms. In parallel, metabolomics analysis was performed to detect differences in metabolite profile among non-infected R...
May 2018: Genome Génome / Conseil National de Recherches Canada
Tuanhui Ren, Zhuanjian Li, Yu Zhou, Xuelian Liu, Ruili Han, Yongcai Wang, FengBin Yan, GuiRong Sun, Hong Li, Xiangtao Kang
Chicken muscle quality is one of the most important factors determining the economic value of poultry, and muscle development and growth are affected by genetics, environment, and nutrition. However, little is known about the molecular regulatory mechanisms of long non-coding RNAs (lncRNAs) in chicken skeletal muscle development. Our study aimed to better understand muscle development in chickens and thereby improve meat quality. In this study, Ribo-Zero RNA-Seq was used to investigate differences in the expression profiles of muscle development related genes and associated pathways between Gushi (GS) and Arbor Acres (AA) chickens...
May 2018: Genome Génome / Conseil National de Recherches Canada
Swati Vaish, Praveen Awasthi, Siddharth Tiwari, Shailesh Kumar Tiwari, Divya Gupta, Mahesh Kumar Basantani
Plant glutathione S-transferases (GSTs) are integral to normal plant metabolism and biotic and abiotic stress tolerance. The GST gene family has been characterized in diverse plant species using molecular biology and bioinformatics approaches. In the current study, in silico analysis identified 44 GSTs in Vigna radiata. Of the total 44 GSTs identified, chromosomal locations of 31 GSTs were confirmed. The pI value of GST proteins ranged from 5.10 to 9.40. The predicted molecular weights ranged from 13.12 to 50 kDa...
May 2018: Genome Génome / Conseil National de Recherches Canada
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No abstract text is available yet for this article.
April 2018: Genome Génome / Conseil National de Recherches Canada
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