scholarly journals Assessing the Drosophila melanogaster and Anopheles gambiae Genome Annotations Using Genome-Wide Sequence Comparisons

2003 ◽  
Vol 13 (7) ◽  
pp. 1595-1599 ◽  
Author(s):  
O. Jaillon
Keyword(s):  
Drosophila Melanogaster ◽  
Anopheles Gambiae ◽  
Sequence Comparisons ◽  
Genome Wide ◽  
Genome Annotations ◽  
Gambiae Genome

A Family of Genes Clustered at the Triplo-lethal Locus of Drosophila melanogaster Has an Unusual Evolutionary History and Significant Synteny With Anopheles gambiae

Genetics ◽  
2003 ◽  
Vol 165 (2) ◽  
pp. 613-621 ◽  
Author(s):  
Douglas R Dorer ◽  
Jamie A Rudnick ◽  
Etsuko N Moriyama ◽  
Alan C Christensen
Keyword(s):  
Phylogenetic Analysis ◽  
Drosophila Melanogaster ◽  
Anopheles Gambiae ◽  
Evolutionary History ◽  
Codon Bias ◽  
Good Target ◽  
The Family ◽  
Genes Encoding ◽  
And Function ◽  
Gambiae Genome

Abstract Within the unique Triplo-lethal region (Tpl) of the Drosophila melanogaster genome we have found a cluster of 20 genes encoding a novel family of proteins. This family is also present in the Anopheles gambiae genome and displays remarkable synteny and sequence conservation with the Drosophila cluster. The family is also present in the sequenced genome of D. pseudoobscura, and homologs have been found in Aedes aegypti mosquitoes and in four other insect orders, but it is not present in the sequenced genome of any noninsect species. Phylogenetic analysis suggests that the cluster evolved prior to the divergence of Drosophila and Anopheles (250 MYA) and has been highly conserved since. The ratio of synonymous to nonsynonymous substitutions and the high codon bias suggest that there has been selection on this family both for expression level and function. We hypothesize that this gene family is Tpl, name it the Osiris family, and consider possible functions. We also predict that this family of proteins, due to the unique dosage sensitivity and the lack of homologs in noninsect species, would be a good target for genetic engineering or novel insecticides.

scholarly journals Regulatory Mechanisms of Metamorphic Neuronal Remodeling Revealed Through a Genome-Wide Modifier Screen in Drosophila melanogaster

Genetics ◽  
2017 ◽  
Vol 206 (3) ◽  
pp. 1429-1443 ◽  
Author(s):  
Dahong Chen ◽  
Tingting Gu ◽  
Tom N. Pham ◽  
Montgomery J. Zachary ◽  
Randall S. Hewes
Keyword(s):  
Drosophila Melanogaster ◽  
Regulatory Mechanisms ◽  
Neuronal Remodeling ◽  
Genome Wide ◽  
A Genome

scholarly journals A Tool to Build Up-To-Date Gene Annotations for Affymetrix Microarrays

2017 ◽  
Vol 3 (2) ◽  
pp. 38 ◽  
Author(s):  
Vladislava Milchevskaya ◽  
Grischa Tödt ◽  
Toby James Gibson
Keyword(s):  
Statistical Power ◽  
Gene Annotation ◽  
Clinical Diagnostics ◽  
Specific Gene ◽  
Microarray Probe ◽  
New Genes ◽  
Affymetrix Microarrays ◽  
Genome Wide ◽  
Definition Of ◽  
Genome Annotations

Genome-wide expression profiling and genotyping is widely applied in functional genomics research, ranging from stem cell studies to cancer, in drug response studies, and in clinical diagnostics. The Affymetrix GeneChip microarrays represent the most popular platform for such assays. Nevertheless, due to rapid and continuous improvement of the knowledge about the genome, the definition of many of the genes and transcripts change, and new genes are discovered. Thus the original probe information is out-dated for a number of Affymetrix platforms, and needs to be re-defined. It has been demonstrated, that accurate probe set definition improves both coverage of the gene expression analysis and its statistical power. Therefore we developed a method that incorporates the most recent genome annotations into the annotation of the microarray probe sets, using tools from the next generation sequencing. Additionally our method allows to quickly build project specific gene annotation models, as well as for comparison of microarray to RNAseq data.

scholarly journals Plasmodium berghei ookinetes bind to Anopheles gambiae and Drosophila melanogaster annexins

2005 ◽  
Vol 57 (1) ◽  
pp. 171-179 ◽  
Author(s):  
Michalis Kotsyfakis ◽  
Laurence Ehret-Sabatier ◽  
Inga Siden-Kiamos ◽  
Jaqueline Mendoza ◽  
Robert E. Sinden ◽  
...  
Keyword(s):  
Drosophila Melanogaster ◽  
Anopheles Gambiae ◽  
Plasmodium Berghei

A comparative study of the porin genes encoding VDAC, a voltage-dependent anion channel protein, in Anopheles gambiae and Drosophila melanogaster

Gene ◽  
2003 ◽  
Vol 317 ◽  
pp. 111-115 ◽  
Author(s):  
Marco Sardiello ◽  
Gaetano Tripoli ◽  
Marta Oliva ◽  
Federica Santolamazza ◽  
Roberta Moschetti ◽  
...  
Keyword(s):  
Drosophila Melanogaster ◽  
Comparative Study ◽  
Anopheles Gambiae ◽  
Anion Channel ◽  
Voltage Dependent Anion Channel ◽  
Channel Protein ◽  
Voltage Dependent ◽  
Genes Encoding

scholarly journals The composition and organization of Drosophila heterochromatin are heterogeneous and dynamic

eLife ◽  
2016 ◽  
Vol 5 ◽  
Author(s):  
Joel M Swenson ◽  
Serafin U Colmenares ◽  
Amy R Strom ◽  
Sylvain V Costes ◽  
Gary H Karpen
Keyword(s):  
Cell Cycle ◽  
Image Analysis ◽  
Drosophila Melanogaster ◽  
Gene Silencing ◽  
Epigenetic Factors ◽  
Heterochromatin Protein ◽  
Genome Wide ◽  
A Genome ◽  
Drosophila Heterochromatin ◽  
Heterochromatin Domain

Heterochromatin is enriched for specific epigenetic factors including Heterochromatin Protein 1a (HP1a), and is essential for many organismal functions. To elucidate heterochromatin organization and regulation, we purified Drosophila melanogaster HP1a interactors, and performed a genome-wide RNAi screen to identify genes that impact HP1a levels or localization. The majority of the over four hundred putative HP1a interactors and regulators identified were previously unknown. We found that 13 of 16 tested candidates (83%) are required for gene silencing, providing a substantial increase in the number of identified components that impact heterochromatin properties. Surprisingly, image analysis revealed that although some HP1a interactors and regulators are broadly distributed within the heterochromatin domain, most localize to discrete subdomains that display dynamic localization patterns during the cell cycle. We conclude that heterochromatin composition and architecture is more spatially complex and dynamic than previously suggested, and propose that a network of subdomains regulates diverse heterochromatin functions.

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