• Systematic Identification of Cyclic-di-GMP Binding Proteins in Vibrio cholerae Reveals a Novel Class of Cyclic-di-GMP-Binding ATPases Associated with Type II Secretion Systems 

  Roelofs, Kevin G.; Jones, Christopher J.; Helman, Sarah R.; Shang, Xiaoran; Orr, Mona W.; Goodson, Jonathan R.; Galperin, Michael Y.; Yildiz, Fitnat H.; Lee, Vincent T. (PLOS (Public Library of Science), 2015-10-27)

  Cyclic-di-GMP (c-di-GMP) is a ubiquitous bacterial signaling molecule that regulates a variety of complex processes through a diverse set of c-di-GMP receptor proteins. We have utilized a systematic approach to identify ...

• Uncovering the evolutionary origin of plant molecular processes: comparison of Coleochaete (Coleochaetales) and Spirogyra (Zygnematales) transcriptomes 

  Timme, Ruth E; Delwiche, Charles F (2010-05-25)

  Background: The large and diverse land plant lineage is nested within a clade of fresh water green algae, the charophytes. Collection of genome-scale data for land plants and other organisms over the past decade has ...

• Comparative genomic analysis reveals evidence of two novel Vibrio species closely related to V. cholerae 

  Haley, Bradd J; Grim, Christopher J; Hasan, Nur A; Choi, Seon-Young; Chun, Jongsik; Brettin, Thomas S; Bruce, David C; Challacombe, Jean F; Detter, J Chris; Han, Cliff S; Huq, Anwar; Colwell, Rita R (2010-05-27)

  Background: In recent years genome sequencing has been used to characterize new bacterial species, a method of analysis available as a result of improved methodology and reduced cost. Included in a constantly expanding ...

• The non-pathogenic mycobacteria M. smegmatis and M. fortuitum induce rapid host cell apoptosis via a caspase-3 and TNF dependent pathway 

  Bohsali, Amro; Abdalla, Hana; Velmurugan, Kamalakannan; Briken, Volker (2010-09-10)

  Background: The HIV pandemic raised the potential for facultative-pathogenic mycobacterial species like, Mycobacterium kansasii, to cause disseminating disease in humans with immune deficiencies. In contrast, nonpathogenic ...

• Improving pan-genome annotation using whole genome multiple alignment 

  Angiuoli, Samuel V; Dunning Hotopp, Julie C; Salzberg, Steven L; Tettelin, Herve (2011-06-30)

  Background: Rapid annotation and comparisons of genomes from multiple isolates (pan-genomes) is becoming commonplace due to advances in sequencing technology. Genome annotations can contain inconsistencies and errors ...

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