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Floral induction and monocarpic versus polycarpic life histories
Richard Amasino
Genome Biology 2009, 10(7):228   
(2 July 2009)

Subtle differences in control of flowering-induction genes might contribute to the annual versus perennial growth habits of related plant species.

[Abstract] [Full text] [PDF]

Motifs and cis-regulatory modules mediating the expression of genes co-expressed in presynaptic neurons
Rui Liu, Sridhar Hannenhalli, Maja Bucan
Genome Biology 2009, 10: R72    
(1 July 2009)

An integrative strategy of comparative genomics, experimental and computational approaches reveals aspects of a regulatory network controlling neuronal-specific expression in presynaptic neurons.

[Abstract] [Provisional PDF]

A passport to neurotransmitter identity
Marten P Smidt, J Peter H Burbach
Genome Biology 2009, 10(7):229   
(1 July 2009)

A conserved gene regulatory circuit for dopaminergic neuron differentiation.

[Abstract] [Full text] [PDF]

Tait
Genetics and genomics converge on the human blood fluke
Andy Tait
Genome Biology 2009, 10(6):225   
(30 June 2009)

A genetic map of the human infective blood fluke Schistosoma mansoni offers new approaches for research on this important parasitic worm.

[Abstract] [Full text] [PDF]

Genomic linkage map of the human blood fluke Schistosoma mansoni
Charles D Criscione, Claudia LL Valentim, Hirohisa Hirai, Philip T LoVerde, Timothy JC Anderson
Genome Biology 2009, 10: R71    
(30 June 2009)

The first genetic linkage map of Schistosoma mansoni reveals insights into higher female recombination, confirms ZW inheritance patterns and recombination hotspots.

[Abstract] [Provisional PDF] [PubMed] [Related articles]

Translational disease interpretation with molecular networks
Anaïs Baudot, Gonzalo Gómez-López, Alfonso Valencia
Genome Biology 2009, 10(6):221   
(29 June 2009)

The integration of medical information into gene and protein networks could lead to a better understanding of complex diseases.

[Abstract] [Full text] [PDF]

What my genome told me - and what it didn't
Gregory A Petsko
Genome Biology 2009, 10(6):108   
(29 June 2009)

Lessons in personal genome analysis, social networking or health information?

[Abstract] [Full text] [PDF]

Genome analysis and genome-wide proteomics of Thermococcus gammatolerans, the most radioresistant organism known amongst the Archaea
Yvan Zivanovic, Jean Armengaud, Arnaud Lagorce, Christophe Leplat, Philippe Guerin, Murielle Dutertre, Veronique Anthouard, Patrick Forterre, Patrick Wincker, Fabrice Confalonieri
Genome Biology 2009, 10: R70    
(26 June 2009)

The genome sequence of Thermococcus gammatolerans, a radioresistant archaeon, is described; a proteomic analysis reveals that radioresistance may be due to unknown DNA repair enzymes.

[Abstract] [Provisional PDF] [PubMed] [Related articles]

Interfacing systems biology and synthetic biology
Allyson Lister, Varodom Charoensawan, Subhajyoti De, Katherine James, Sarath Chandra Janga, Julian Huppert
Genome Biology 2009, 10(6):309   
(26 June 2009)

A report of BioSysBio 2009, the IET conference on Synthetic Biology, Systems Biology and Bioinformatics, Cambridge, UK, 23-25 March 2009.

[Abstract] [Full text] [PDF]

iBsu1103: a new genome-scale metabolic model of Bacillus subtilis based on SEED annotations
Christopher S Henry, Jenifer F Zinner, Matthew P Cohoon, Rick L Stevens
Genome Biology 2009, 10: R69    
(25 June 2009)

A new and validated genome-scale metabolic model of Bacillus subtilis 168, iBsu1103, is presented that has significantly improved completeness and accuracy.

[Abstract] [Provisional PDF] [PubMed] [Related articles]

Comparative genomic analysis of C4 photosynthetic pathway evolution in grasses
Xiyin Wang, Udo Gowik, Haibao Tang, John E Bowers, Peter Westhoff, Andrew H Paterson
Genome Biology 2009, 10: R68    
(23 June 2009)

Comparison of the sorghum, maize and rice genomes shows that gene duplication and functional innovation is common to evolution of most but not all genes in the C4 photosynthetic pathway.

[Abstract] [Provisional PDF] [PubMed] [Related articles]

Insights into female sperm storage from the spermathecal fluid proteome of the honeybee Apis mellifera
Boris Baer, Holger Eubel, Nicolas L Taylor, Nicholas O'Toole, A Harvey Millar
Genome Biology 2009, 10: R67    
(18 June 2009)

A proteomic and metabolic network analysis of honeybee queen spermathecal fluid provides insights into female long-term sperm storage mechanisms.

[Abstract] [Provisional PDF] [PubMed] [Related articles]

Global expression analysis of the brown alga Ectocarpus siliculosus (Phaeophyceae) reveals large-scale reprogramming of the transcriptome in response to abiotic stress
Simon M Dittami, Delphine Scornet, Jean-Louis Petit, Béatrice Ségurens, Corinne Da Silva, Erwan Corre, Michael Dondrup, Karl-Heinz Glatting, Rainer König, Lieven Sterck, Pierre Rouzé, Yves Van de Peer, J Mark Cock, Catherine Boyen, Thierry Tonon
Genome Biology 2009, 10: R66    
(16 June 2009)

The brown alga Ectocarpus siliculosus, unlike terrestrial plants, undergoes extensive reprogramming of its transcriptome during the acclimation to mild abiotic stress.

[Abstract] [Provisional PDF] [PubMed] [Related articles]

A hidden reservoir of integrative elements is the major source of recently acquired foreign genes and ORFans in archaeal and bacterial genomes
Diego Cortez, Patrick Forterre, Simonetta Gribaldo
Genome Biology 2009, 10(6):R65    
(16 June 2009)

A large-scale survey of potential recently acquired integrative elements in 119 archaeal and bacterial genomes reveals that many recently acquired genes have originated from integrative elements

[Abstract] [Full text] [PDF] [PubMed] [Related articles]

A novel and universal method for microRNA RT-qPCR data normalization
Pieter Mestdagh, Pieter Van Vlierberghe, An De Weer, Daniel Muth, Frank Westermann, Frank Speleman, Jo Vandesompele
Genome Biology 2009, 10(6):R64    
(16 June 2009)

The mean expression value: a new method for accurate and reliable normalization of microRNA expression data from RT-qPCR experiments.

[Abstract] [Full text] [PDF] [PubMed] [Related articles]

The WASP and WAVE family proteins
Shusaku Kurisu, Tadaomi Takenawa
Genome Biology 2009, 10(6):226   
(15 June 2009)

A review of the cytoskeleton-organizing WASP and WAVE family proteins.

[Abstract] [Full text] [PDF]

Transposons that clean up after themselves
Douglas L Chalker
Genome Biology 2009, 10(6):224   
(15 June 2009)

A transposon in the germline genome of the ciliate Oxytricha removes itself from the differentiating somatic genome during development.

[Abstract] [Full text] [PDF]

The conservation and evolutionary modularity of metabolism
Jose M Peregrin-Alvarez, Chris Sanford, John Parkinson
Genome Biology 2009, 10: R63    
(12 June 2009)

A novel evolutionary analysis of metabolic networks across 26 taxa reveals a highly-conserved but flexible core of metabolic enzymes.

[Abstract] [Provisional PDF] [PubMed] [Related articles]

Genome-wide analysis of mono-, di- and trimethylation of histone H3 lysine 4 in Arabidopsis thaliana
Xiaoyu Zhang, Yana V Bernatavichute, Shawn Cokus, Matteo Pellegrini, Steven E Jacobsen
Genome Biology 2009, 10(6):R62    
(9 June 2009)

Analysis of the genome-wide distribution patterns of histone H3 lysine4 methylation in Arabidopsis thaliana seedlings shows that it has widespread roles in regulating gene expression.

[Abstract] [Full text] [PDF] [PubMed] [Related articles]

DNA breaks as triggers for antigenic variation in African trypanosomes
Sam Alsford, David Horn, Lucy Glover
Genome Biology 2009, 10(6):223   
(8 June 2009)

Double-strand breaks initiate coat protein switching in African trypanosomes.

[Abstract] [Full text] [PDF] [PubMed] [Related articles]

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