Minshall, Nicola Chernukhin, Igor Carroll, Jason Git, Anna
Two Illumina Single-End (50) read fastq files, gzip-compressed. “RNAseq.fq.gz” contains the results of sequencing a pooled RNA sample using the manufacturer’s Stranded TrueSeq protocol; “ncRNAseq.fq.gz” contains the results of sequencing the same sample using a modified protocol. A manuscript describing the modified RNA-seq method is to be submitte...
de Pedro-Jové, R. Puigvert, M. Sebastià, P. Macho, A. P. Monteiro, J. S. Coll, N. S. Setúbal, J. C. Valls, M.
Published in
BMC Genomics
BackgroundRalstonia solanacearum is the causal agent of bacterial wilt, a devastating plant disease responsible for serious economic losses especially on potato, tomato, and other solanaceous plant species in temperate countries. In R. solanacearum, gene expression analysis has been key to unravel many virulence determinants as well as their regula...
Li, Xingnan Christenson, Stephanie A Modena, Brian Li, Huashi Busse, William W Castro, Mario Denlinger, Loren C Erzurum, Serpil C Fahy, John V Gaston, Benjamin
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Published in
The Journal of allergy and clinical immunology
The Chr17q12-21.2 region is the strongest and most consistently associated region with asthma susceptibility. The functional genes or single nucleotide polymorphisms (SNPs) are not obvious due to linkage disequilibrium. We sought to comprehensively investigate whole-genome sequence and RNA sequence from human bronchial epithelial cells to dissect f...
Herbert, Denise Brigitte Gross, Thomas Rupp, Oliver Becker, Annette
Published in
BMC Plant Biology
Background Red clover ( Trifolium pratense ) is globally used as a fodder plant due its high nutritional value and soil improving qualities. In response to mowing, red clover exhibits specific morphological traits to compensate the loss of biomass. The morphological reaction is well described, but the underlying molecular mechanisms and its role fo...
Rancilhac, Loïs Irisarri, Iker Angelini, Claudio Arntzen, Jan Babik, Wiesław Bossuyt, Franky Künzel, Sven Lüddecke, Tim Pasmans, Frank Sanchez, Eugenia
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International audience
Tiong, Jingwen Sharma, Niharika Sampath, Ramya MacKenzie, Nenah Watanabe, Sayuri Metot, Claire Lu, Zhongjin Skinner, Wayne Lu, Yingzhi Kridl, Jean
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Published in
Frontiers in Plant Science
Nitrogen is an essential nutrient for plants, but crop plants are inefficient in the acquisition and utilization of applied nitrogen. This often results in producers over applying nitrogen fertilizers, which can negatively impact the environment. The development of crop plants with more efficient nitrogen usage is, therefore, an important research ...
Wójcik-Jagła, Magdalena Daszkowska-Golec, Agata Fiust, Anna Kopeć, Przemysław Rapacz, Marcin
Published in
International Journal of Molecular Sciences
Mechanisms involved in the de-acclimation of herbaceous plants caused by warm periods during winter are poorly understood. This study identifies the genes associated with this mechanism in winter barley. Seedlings of eight accessions (four tolerant and four susceptible to de-acclimation cultivars and advanced breeding lines) were cold acclimated fo...
Marzec, Jacek Ross-Adams, Helen Pirrò, Stefano Wang, Jun Zhu, Yanan Mao, Xueying Gadaleta, Emanuela Ahmad, Amar S. North, Bernard V. Kammerer-Jacquet, Solène-Florence
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Published in
Cancers
Simple Summary There is a tremendous amount of gene expression information available for prostate cancer, but very few tools exist to combine the disparate datasets generated across sample types and technical platforms. We present a method of integrating different types of expression data from different study cohorts to increase analytic power, and...
Russo, Riccardo Sicilia, Angelo Caruso, Marco Arlotta, Carmen Di Silvestro, Silvia Gmitter, Frederick G. Jr. Nicolosi, Elisabetta Lo Piero, Angela Roberta
Published in
International Journal of Molecular Sciences
Mal secco is one of the most severe diseases of citrus, caused by the necrotrophic fungus Plenodomus tracheiphilus . With the main aim of identifying candidate genes involved in the response of citrus plants to “Mal secco”, we performed a de novo transcriptome analysis of rough lemon seedlings subjected to inoculation of P. tracheiphilus . The anal...
Gao, S. T. Ma, Lu Zhang, Y. D. Wang, J. Q. Loor, J. J. Bu, D. P.
Published in
BMC Genomics
BackgroundForage plays critical roles in milk performance of dairy. However, domestic high-quality forage such as alfalfa hay is far from being sufficient in China. Thus, more than 1 million tons of alfalfa hay were imported in China annually in recent years. At the same time, more than 10 million tons of corn stover are generated annually in China...