scholarly journals De Novo Assembly, Annotation, and Characterization of Root Transcriptomes of Three Caladium Cultivars with a Focus on Necrotrophic Pathogen Resistance/Defense-Related Genes

2017 ◽  
Vol 18 (4) ◽  
pp. 712 ◽  
Author(s):  
Zhe Cao ◽  
Zhanao Deng
Keyword(s):  
De Novo Assembly ◽  
De Novo ◽  
Pathogen Resistance ◽  
Necrotrophic Pathogen

scholarly journals De Novo Assembly and Characterization of the Xenocatantops brachycerus Transcriptome

2018 ◽  
Vol 19 (2) ◽  
pp. 520 ◽  
Author(s):  
Le Zhao ◽  
Xinmei Zhang ◽  
Zhongying Qiu ◽  
Yuan Huang
Keyword(s):  
De Novo Assembly ◽  
De Novo

scholarly journals De novo assembly and characterization of the root transcriptome of Aegilops variabilis during an interaction with the cereal cyst nematode

BMC Genomics ◽  
2012 ◽  
Vol 13 (1) ◽  
pp. 133 ◽  
Author(s):  
De-Lin Xu ◽  
Hai Long ◽  
Jun-Jun Liang ◽  
Jie Zhang ◽  
Xin Chen ◽  
...  
Keyword(s):  
De Novo Assembly ◽  
De Novo ◽  
Cyst Nematode ◽  
Cereal Cyst Nematode ◽  
Root Transcriptome ◽  
Aegilops Variabilis

scholarly journals De novo assembly and characterization of skin transcriptome using RNAseq in sheep (Ovis aries)

2015 ◽  
Vol 14 (1) ◽  
pp. 1371-1384 ◽  
Author(s):  
Y.J. Yue ◽  
J.B. Liu ◽  
M. Yang ◽  
J.L. Han ◽  
T.T. Guo ◽  
...  
Keyword(s):  
De Novo Assembly ◽  
De Novo ◽  
Ovis Aries

Genomic and Cytogenetic Characterization of a Balanced Translocation Disrupting NUP98

2017 ◽  
Vol 152 (3) ◽  
pp. 117-121
Author(s):  
My Linh Thibodeau ◽  
Michelle Steinraths ◽  
Lindsay Brown ◽  
Zheyuan Zong ◽  
Naomi Shomer ◽  
...  
Keyword(s):  
De Novo Assembly ◽  
De Novo ◽  
Chromosome Rearrangement ◽  
Healthy Woman ◽  
Asian Woman ◽  
Balanced Translocation ◽  
Gene Desert ◽  
Fusion Event ◽  
Translocation Breakpoints

A 41-year-old Asian woman with bilateral renal angiomyolipomas (AML) was incidentally identified to have a balanced translocation, 46,XX,t(11;12)(p15.4;q15). She had no other features or family history to suggest a diagnosis of tuberous sclerosis. Her healthy daughter had the same translocation and no renal AML at the age of 3 years. Whole-genome sequencing was performed on genomic maternal DNA isolated from blood. A targeted de novo assembly was then conducted with ABySS for chromosomes 11 and 12. Sanger sequencing was used to validate the translocation breakpoints. As a result, genomic characterization of chromosomes 11 and 12 revealed that the 11p breakpoint disrupted the NUP98 gene in intron 1, causing a separation of the promoter and transcription start site from the rest of the gene. The translocation breakpoint on chromosome 12q was located in a gene desert. NUP98 has not yet been associated with renal AML pathogenesis, but somatic NUP98 alterations are recurrently implicated in hematological malignancies, most often following a gene fusion event. We also found evidence for complex structural events involving chromosome 12, which appear to disrupt the TDG gene. We identified a TDGP1 partially processed pseudogene at 12p12.1, which adds complexity to the de novo assembly. In conclusion, this is the first report of a germline constitutional structural chromosome rearrangement disrupting NUP98 that occurred in a generally healthy woman with bilateral renal AML.

scholarly journals De Novo Assembly and Characterization of Stress Transcriptome in a Salinity-Tolerant Variety CS52 of Brassica juncea

PLoS ONE ◽  
2015 ◽  
Vol 10 (5) ◽  
pp. e0126783 ◽  
Author(s):  
Rita Sharma ◽  
Manjari Mishra ◽  
Brijesh Gupta ◽  
Chirag Parsania ◽  
Sneh L. Singla-Pareek ◽  
...  
Keyword(s):  
Brassica Juncea ◽  
De Novo Assembly ◽  
De Novo ◽  
Tolerant Variety

De novo assembly, characterization of tissue-specific transcriptomes and identification of immune related genes from the scallop Argopecten purpuratus

2019 ◽  
Vol 89 ◽  
pp. 505-515 ◽  
Author(s):  
Patricio Flores-Herrera ◽  
Rodolfo Farlora ◽  
Roxana González ◽  
Katherina Brokordt ◽  
Paulina Schmitt
Keyword(s):  
De Novo Assembly ◽  
De Novo ◽  
Tissue Specific ◽  
Argopecten Purpuratus ◽  
Immune Related Genes
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