Genome Biology | Volume 3 Issue 5

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	Volume 3 Issue 5
	Comment
	Comment Grain of truth Gregory A Petsko Genome Biology 2002, 3:comment1007-comment1007.2 (25 April 2002) Abstract \| Full text \| PDF \| PubMed \| Editor’s summary Three billion people depend on rice for the greater part of their daily caloric intake. The announcement in early April that two groups had completed draft genome sequences of two closely related subspecies of rice made the front pages of newspapers worldwide.
	Comment Life sentences: Elementary Zenetics - do or dai Sydney Brenner Genome Biology 2002, 3:comment1008-comment1008.2 (1 May 2002) Abstract \| Full text \| PDF \| PubMed \| Editor’s summary An announcement of the birth of the new subject of Zenetics, which came from a comparison of genetics with the Zen stone garden.
	Review
	Review Beyond the proteome: non-coding regulatory RNAs Maciej Szymański, Jan Barciszewski Genome Biology 2002, 3:reviews0005-reviews0005.8 (15 April 2002) Abstract \| Full text \| PDF \| PubMed
	Review The diversity of acetylated proteins Bogdan Polevoda, Fred Sherman Genome Biology 2002, 3:reviews0006-reviews0006.6 (30 April 2002) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central \| Editor’s summary Amino-terminal acetylation occurs on the bulk of eukaryotic acetylated proteins and on regulatory peptides, whereas lysine acetylation occurs at different positions on a variety of proteins, including histones, transcription factors, nuclear import factors, and α-tubulin.
	Protein family review The ADF/cofilin family: actin-remodeling proteins Sutherland K Maciver, Patrick J Hussey Genome Biology 2002, 3:reviews3007-reviews3007.12 (26 April 2002) Abstract \| Full text \| PDF \| PubMed \| Editor’s summary The ADF/cofilins are a family of actin-binding proteins that remodel the actin cytoskeleton, for example during cytokinesis, by severing actin filaments and also increasing the rate at which monomers leave the filament's pointed end. Plants and animals have multiple ADF/cofilin genes and other eukaryotes have a single ADF/cofilin gene.
	Minireview Selection and gene duplication: a view from the genome Andreas Wagner Genome Biology 2002, 3:reviews1012-reviews1012.3 (15 April 2002) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central
	Minireview Wheat functional genomics and engineering crop improvement Michael Francki, Rudi Appels Genome Biology 2002, 3:reviews1013-reviews1013.5 (23 April 2002) Abstract \| Full text \| PDF \| PubMed \| Editor’s summary Genetic mapping and determination of the organization of the wheat genome are changing the wheat-breeding process. New initiatives to analyze the expressed portion of the wheat genome and structural analysis of the genomes of Arabidopsis and rice are increasing our knowledge of the genes that are linked to key agronomically important traits.
	Minireview Targeting fragile X Ilse Gantois, R Frank Kooy Genome Biology 2002, 3:reviews1014-reviews1014.5 (25 April 2002) Abstract \| Full text \| PDF \| PubMed
	Opinion Microarrays and molecular markers for tumor classification Brian Z Ring, Douglas T Ross Genome Biology 2002, 3:comment2005-comment2005.6 (29 April 2002) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central
	Report
	Web report Mining the chicken genome David Chambers Genome Biology 2002, 3:reports2013 (25 April 2002) Abstract \| Full text
	Paper report Mammalian RNAi Chris Berrie Genome Biology 2002, 3:reports0024 (25 April 2002) Abstract \| Full text
	Paper report Picturing gene expression in the brain Agnieszka M Lichanska Genome Biology 2002, 3:reports0025 (2 May 2002) Abstract \| Full text \| Editor’s summary Voxelation is used as a novel method for three-dimensional imaging of gene expression in the brain
	Paper report Microarray analysis of complex traits Agnieszka M Lichanska Genome Biology 2002, 3:reports0026 (2 May 2002) Abstract \| Full text
	Paper report Brucella virulence Wim D'Haeze Genome Biology 2002, 3:reports0027 (2 May 2002) Abstract \| Full text \| Editor’s summary Investigation of transcriptional regulation of the virB operon has revealed clues to how Brucella suis survives within host cells
	Paper report Cholera takes a nasty turn Wim D'Haeze Genome Biology 2002, 3:reports0028 (2 May 2002) Abstract \| Full text \| Editor’s summary Genes encoding key factors that transform endemic Vibrio cholerae strains into pandemic ones have been identified
	Meeting report Foliage in Madrid John L Bowman Genome Biology 2002, 3:reports4013-reports4013.2 (15 April 2002) Abstract \| Full text \| PDF \| PubMed \| Editor’s summary A report on the 'Leaf Development' workshop hosted by the Instituto Juan March de Estudios e Investigaciones, Madrid, Spain, 11-13 February 2002.
	Meeting report Genome packaging and expression Merlin Crossley Genome Biology 2002, 3:reports4014-reports4014.3 (23 April 2002) Abstract \| Full text \| PDF \| PubMed \| Editor’s summary A report on the 23rd Annual Lorne Conference on the Organization and Expression of the Genome, Lorne, Victoria, Australia, 17-21 February 2002.
	Research news Phagocytic programme Jonathan B Weitzman Genome Biology 2002, 3:spotlight-20020501-01 (1 May 2002) Abstract \| Full text \| Editor’s summary Analysis of the phagocytosis-induced transcriptome reveals a link with apoptosis.
	Research news Turning rats into robots Jonathan B Weitzman Genome Biology 2002, 3:spotlight-20020502-02 (2 May 2002) Abstract \| Full text \| Editor’s summary Brain microstimulators have been used to train laboratory animals and guide their navigation by remote control.
	Research news 2002 National Academy Fellows David Bruce Genome Biology 2002, 3:spotlight-20020502-01 (2 May 2002) Abstract \| Full text \| Editor’s summary The US National Academy of Sciences yesterday announced the election of 72 new members
	Research news Stress and alcohol Jonathan B Weitzman Genome Biology 2002, 3:spotlight-20020503-01 (3 May 2002) Abstract \| Full text \| Editor’s summary A mouse model provides evidence for a genetic risk factor for stress-induced alcohol intake.
	Research news The hidden transcriptome Jonathan B Weitzman Genome Biology 2002, 3:spotlight-20020507-02 (7 May 2002) Abstract \| Full text \| Editor’s summary An array-guided approach has uncovered thousands of undiscovered transcribed regions in the human genome.
	Research news Display of targets in multiple sclerosis Tudor Toma Genome Biology 2002, 3:spotlight-20020507-01 (7 May 2002) Abstract \| Full text \| Editor’s summary Gene-microarray analysis of multiple sclerosis lesions reveals molecular mechanisms and new therapeutic targets
	Research news Splicing chips Jonathan B Weitzman Genome Biology 2002, 3:spotlight-20020507-03 (7 May 2002) Abstract \| Full text \| Editor’s summary Researchers have designed a splicing-specific microarray assay to investigate mRNA processing in yeast.
	Research news Annotation by SAGE Jonathan B Weitzman Genome Biology 2002, 3:spotlight-20020508-02 (8 May 2002) Abstract \| Full text \| Editor’s summary The inventors of SAGE technology describe a modified method to facilitate gene discovery.
	Research news Error-prone mitochondria Tudor Toma Genome Biology 2002, 3:spotlight-20020508-01 (8 May 2002) Abstract \| Full text \| Editor’s summary A point mutation in mitochondrial DNA polymerase ? causes error-prone DNA synthesis in progressive external ophthalmoplegia
	Research news Anthrax genomics Jonathan B Weitzman Genome Biology 2002, 3:spotlight-20020509-02 (9 May 2002) Abstract \| Full text \| Editor’s summary Comparative bacterial genomics offers tools in the war against bioterrorism.
	Research news Streptomyces coelicolor genome Tudor Toma Genome Biology 2002, 3:spotlight-20020509-01 (9 May 2002) Abstract \| Full text \| Editor’s summary The complete Streptomyces coelicolor genome reveals many of the adaptations necessary for life in the highly competitive soil environment.
	Research news Housekeeping clusters Jonathan B Weitzman Genome Biology 2002, 3:spotlight-20020510-01 (10 May 2002) Abstract \| Full text \| Editor’s summary There is controversy over the function of large clusters of co-expressed genes in the human genome.
	Research news 2002 Royal Society Fellows David Bruce Genome Biology 2002, 3:spotlight-20020513-01 (13 May 2002) Abstract \| Full text \| Editor’s summary The UK's Royal Society has announced the election of 42 new Fellows and six Foreign Members.
	Research news Choosing the X Jonathan B Weitzman Genome Biology 2002, 3:spotlight-20020513-02 (13 May 2002) Abstract \| Full text \| Editor’s summary Genetic crosses in mice have identified autosomal loci that affect the choice of X chromosome to be inactivated.
	Research news Chromatin control during the cell cycle Jonathan B Weitzman Genome Biology 2002, 3:spotlight-20020514-01 (14 May 2002) Abstract \| Full text \| Editor’s summary A large macromolecular complex regulates chromatin conformation and gene transcription during the cell cycle.
	Research news From genes to disease Jonathan B Weitzman Genome Biology 2002, 3:spotlight-20020515-01 (15 May 2002) Abstract \| Full text \| Editor’s summary Bioinformatics approaches can help find promising candidate genes associated with genetic diseases.
	Research news A WiNTers tale Jonathan B Weitzman Genome Biology 2002, 3:spotlight-20020516-02 (16 May 2002) Abstract \| Full text \| Editor’s summary The Xenopus NF-AT transcription factor acts as a downstream component of the WNT/calcium signalling pathway.
	Research news Can sequences turn a profit? Tabitha M Powledge Genome Biology 2002, 3:spotlight-20020516-01 (16 May 2002) Abstract \| Full text \| Editor’s summary The public release of the draft mouse genome sequence reopens the debate on the commercial viability of genome sequencing.
	Research news Bacterial ancestors Jonathan B Weitzman Genome Biology 2002, 3:spotlight-20020517-01 (17 May 2002) Abstract \| Full text \| Editor’s summary Analysis of ribosomal RNA sequences in bacteria suggests that the earliest organisms were not hyperthermophiles.
	Research news Virus-induced RNA silencing Jonathan B Weitzman Genome Biology 2002, 3:spotlight-20020520-01 (20 May 2002) Abstract \| Full text \| Editor’s summary RNA silencing is shown to be part of an adaptive antiviral defence in animal cells.
	Research news Sex determination in fish Jonathan B Weitzman Genome Biology 2002, 3:spotlight-20020521-01 (21 May 2002) Abstract \| Full text \| Editor’s summary Genetic analysis of medaka fish has identified a gene on the Y chromosome that is required for male development.
	Research news A proven role for methylation Jonathan B Weitzman Genome Biology 2002, 3:spotlight-20020522-02 (22 May 2002) Abstract \| Full text \| Editor’s summary A clear example of cell-type-specific gene regulation by cytosine methylation has been described in epithelial cells.
	Research news Stephen Jay Gould dies Hal Cohen Genome Biology 2002, 3:spotlight-20020522-01 (22 May 2002) Abstract \| Full text \| Editor’s summary Controversial evolutionary biologist succumbs to cancer he had battled for 20 years.
	Research news Oncogenic phosphatase amplification Jonathan B Weitzman Genome Biology 2002, 3:spotlight-20020523-01 (23 May 2002) Abstract \| Full text \| Editor’s summary Amplification of a genomic locus encoding a phosphatase modulates tumor suppression.
	Research news Haplotype blocks Jonathan B Weitzman Genome Biology 2002, 3:spotlight-20020524-01 (24 May 2002) Abstract \| Full text \| Editor’s summary Large scale genomic analysis provides evidence for extensive blocks of common haplotpyes within the human genome.
	Research news US genome sequencing priorities decided Tabitha M Powledge Genome Biology 2002, 3:spotlight-20020524-02 (24 May 2002) Abstract \| Full text \| Editor’s summary The chicken genome will be among the next to be sequenced, and so will that of humanity's closest relative.
	Research news Manipulating mosquitoes and malaria Jonathan B Weitzman Genome Biology 2002, 3:spotlight-20020527-01 (27 May 2002) Abstract \| Full text \| Editor’s summary Transgenic mosquitoes may prove to be effective weapons in the war against malaria.
	Research news Comparing Xanthomonas Jonathan B Weitzman Genome Biology 2002, 3:spotlight-20020528-01 (28 May 2002) Abstract \| Full text \| Editor’s summary Comparison of the sequence of two phytopathogen genomes reveals insights into the molecular basis for host specificity and pathogenicity.
	Research news Cow clones Jonathan B Weitzman Genome Biology 2002, 3:spotlight-20020529-01 (29 May 2002) Abstract \| Full text \| Editor’s summary Analysis of X-chromosome inactivation in bovine clones reveals defects in epigenetic regulation.
	Research news Inventory of secreted proteins Jonathan B Weitzman Genome Biology 2002, 3:spotlight-20020530-01 (30 May 2002) Abstract \| Full text \| Editor’s summary Genomic sequence analysis identifies pathogenicity proteins secreted into host cells by a plant pathogen.
	Research news Genomic duplication Jonathan B Weitzman Genome Biology 2002, 3:spotlight-20020531-01 (31 May 2002) Abstract \| Full text \| Editor’s summary Analysis of the human genome sequence provides evidence for extensive duplication events during vertebrate evolution.
	Research
	Research Microarray profile of differentially expressed genes in a monkey model of allergic asthma Jun Zou, Simon Young, Feng Zhu, Ferdous Gheyas, Susan Skeans, Yuntao Wan, Luquan Wang, Wei Ding, Motasim Billah, Terri McClanahan, Robert L Coffman, Robert Egan, Shelby Umland Genome Biology 2002, 3:research0020-research0020.13 (11 April 2002) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central \| F1000 Biology \| Editor’s summary Inhalation of Ascaris suum antigen by allergic monkeys causes an immediate bronchoconstriction and delayed allergic reaction. Monkeys were challenged by A. suum antigen or by interleukin-4 and the gene-expression pattern profiled. Expression levels of 149 genes changed by more than 2.5-fold.
	Research Doxycycline-induced expression of sense and inverted-repeat constructs modulates phosphogluconate mutase (Pgm) gene expression in adult Drosophila melanogaster Michael J Allikian, Denise Deckert-Cruz, Michael R Rose, Gary N Landis, John Tower Genome Biology 2002, 3:research0021-research0021.10 (15 April 2002) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central \| Editor’s summary A tetracycline-regulated (conditional) system for RNA interference (RNAi) would have many practical applications. Such a strategy was developed using RNAi of the gene for phosphogluconate mutase (Pgm).
	Research How many replicates of arrays are required to detect gene expression changes in microarray experiments? A mixture model approach Wei Pan, Jizhen Lin, Chap T Le Genome Biology 2002, 3:research0022-research0022.10 (22 April 2002) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central \| Editor’s summary The question of how many replicates are required to detect differentially expressed genes in microarray experiments has barely been addressed. Here, the issue of how to calculate the number of replicates in the context of applying a nonparametric statistical method is discussed.
	Research The GOLD domain, a novel protein module involved in Golgi function and secretion Vivek Anantharaman, L Aravind Genome Biology 2002, 3:research0023-research0023.7 (24 April 2002) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central \| Editor’s summary Members of the p24 family of proteins have been shown to be components of the coated vesicles that are involved in the transportation of molecules from the endoplasmic reticulum to the Golgi complex. A sequence-profile analysis method was used to identify a β-strand-rich domain, the GOLD domain, in the p24 proteins and several other proteins with roles in Golgi dynamics and secretion.
	Research Evolution of gene fusions: horizontal transfer versus independent events Itai Yanai, Yuri I Wolf, Eugene V Koonin Genome Biology 2002, 3:research0024-research0024.13 (26 April 2002) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central \| Editor’s summary The evolutionary history of gene fusions was studied by phylogenetic analysis. Of the 51 gene fusions studied, 31 were most probably disseminated by cross-kingdom horizontal gene transfer, 14 appeared to have evolved independently in different kingdoms and two were probably inherited from a common ancestor.
	Research Lateral gene transfer and parallel evolution in the history of glutathione biosynthesis genes Shelley D Copley, Jasvinder K Dhillon Genome Biology 2002, 3:research0025-research0025.16 (29 April 2002) Abstract \| Full text \| PDF \| PubMed \| Editor’s summary To evaluate the evolutionary history of the Glutathione pathway bioinformatics was used to analyze sequences of the biosynthetic enzymes γ-glutamylcysteine ligase and glutathione synthetase. γ-Glutamylcysteine ligase sequences fall into three groups: sequences primarily from gamma-proteobacteria; sequences from non-plant eukaryotes; and sequences primarily from alpha-proteobacteria and plants. Conserved sequence motifs are found, suggesting that the proteins are distantly related. The data suggest numerous examples of lateral gene transfer and a common structrual fold.

	Volume 3 Issue 5
	Comment
	Comment Grain of truth Gregory A Petsko Genome Biology 2002, 3:comment1007-comment1007.2 (25 April 2002) Abstract \| Full text \| PDF \| PubMed \| Editor’s summary Three billion people depend on rice for the greater part of their daily caloric intake. The announcement in early April that two groups had completed draft genome sequences of two closely related subspecies of rice made the front pages of newspapers worldwide.
	Comment Life sentences: Elementary Zenetics - do or dai Sydney Brenner Genome Biology 2002, 3:comment1008-comment1008.2 (1 May 2002) Abstract \| Full text \| PDF \| PubMed \| Editor’s summary An announcement of the birth of the new subject of Zenetics, which came from a comparison of genetics with the Zen stone garden.
	Review
	Review Beyond the proteome: non-coding regulatory RNAs Maciej Szymański, Jan Barciszewski Genome Biology 2002, 3:reviews0005-reviews0005.8 (15 April 2002) Abstract \| Full text \| PDF \| PubMed
	Review The diversity of acetylated proteins Bogdan Polevoda, Fred Sherman Genome Biology 2002, 3:reviews0006-reviews0006.6 (30 April 2002) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central \| Editor’s summary Amino-terminal acetylation occurs on the bulk of eukaryotic acetylated proteins and on regulatory peptides, whereas lysine acetylation occurs at different positions on a variety of proteins, including histones, transcription factors, nuclear import factors, and α-tubulin.
	Protein family review The ADF/cofilin family: actin-remodeling proteins Sutherland K Maciver, Patrick J Hussey Genome Biology 2002, 3:reviews3007-reviews3007.12 (26 April 2002) Abstract \| Full text \| PDF \| PubMed \| Editor’s summary The ADF/cofilins are a family of actin-binding proteins that remodel the actin cytoskeleton, for example during cytokinesis, by severing actin filaments and also increasing the rate at which monomers leave the filament's pointed end. Plants and animals have multiple ADF/cofilin genes and other eukaryotes have a single ADF/cofilin gene.
	Minireview Selection and gene duplication: a view from the genome Andreas Wagner Genome Biology 2002, 3:reviews1012-reviews1012.3 (15 April 2002) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central
	Minireview Wheat functional genomics and engineering crop improvement Michael Francki, Rudi Appels Genome Biology 2002, 3:reviews1013-reviews1013.5 (23 April 2002) Abstract \| Full text \| PDF \| PubMed \| Editor’s summary Genetic mapping and determination of the organization of the wheat genome are changing the wheat-breeding process. New initiatives to analyze the expressed portion of the wheat genome and structural analysis of the genomes of Arabidopsis and rice are increasing our knowledge of the genes that are linked to key agronomically important traits.
	Minireview Targeting fragile X Ilse Gantois, R Frank Kooy Genome Biology 2002, 3:reviews1014-reviews1014.5 (25 April 2002) Abstract \| Full text \| PDF \| PubMed
	Opinion Microarrays and molecular markers for tumor classification Brian Z Ring, Douglas T Ross Genome Biology 2002, 3:comment2005-comment2005.6 (29 April 2002) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central
	Report
	Web report Mining the chicken genome David Chambers Genome Biology 2002, 3:reports2013 (25 April 2002) Abstract \| Full text
	Paper report Mammalian RNAi Chris Berrie Genome Biology 2002, 3:reports0024 (25 April 2002) Abstract \| Full text
	Paper report Picturing gene expression in the brain Agnieszka M Lichanska Genome Biology 2002, 3:reports0025 (2 May 2002) Abstract \| Full text \| Editor’s summary Voxelation is used as a novel method for three-dimensional imaging of gene expression in the brain
	Paper report Microarray analysis of complex traits Agnieszka M Lichanska Genome Biology 2002, 3:reports0026 (2 May 2002) Abstract \| Full text
	Paper report Brucella virulence Wim D'Haeze Genome Biology 2002, 3:reports0027 (2 May 2002) Abstract \| Full text \| Editor’s summary Investigation of transcriptional regulation of the virB operon has revealed clues to how Brucella suis survives within host cells
	Paper report Cholera takes a nasty turn Wim D'Haeze Genome Biology 2002, 3:reports0028 (2 May 2002) Abstract \| Full text \| Editor’s summary Genes encoding key factors that transform endemic Vibrio cholerae strains into pandemic ones have been identified
	Meeting report Foliage in Madrid John L Bowman Genome Biology 2002, 3:reports4013-reports4013.2 (15 April 2002) Abstract \| Full text \| PDF \| PubMed \| Editor’s summary A report on the 'Leaf Development' workshop hosted by the Instituto Juan March de Estudios e Investigaciones, Madrid, Spain, 11-13 February 2002.
	Meeting report Genome packaging and expression Merlin Crossley Genome Biology 2002, 3:reports4014-reports4014.3 (23 April 2002) Abstract \| Full text \| PDF \| PubMed \| Editor’s summary A report on the 23rd Annual Lorne Conference on the Organization and Expression of the Genome, Lorne, Victoria, Australia, 17-21 February 2002.
	Research news Phagocytic programme Jonathan B Weitzman Genome Biology 2002, 3:spotlight-20020501-01 (1 May 2002) Abstract \| Full text \| Editor’s summary Analysis of the phagocytosis-induced transcriptome reveals a link with apoptosis.
	Research news Turning rats into robots Jonathan B Weitzman Genome Biology 2002, 3:spotlight-20020502-02 (2 May 2002) Abstract \| Full text \| Editor’s summary Brain microstimulators have been used to train laboratory animals and guide their navigation by remote control.
	Research news 2002 National Academy Fellows David Bruce Genome Biology 2002, 3:spotlight-20020502-01 (2 May 2002) Abstract \| Full text \| Editor’s summary The US National Academy of Sciences yesterday announced the election of 72 new members
	Research news Stress and alcohol Jonathan B Weitzman Genome Biology 2002, 3:spotlight-20020503-01 (3 May 2002) Abstract \| Full text \| Editor’s summary A mouse model provides evidence for a genetic risk factor for stress-induced alcohol intake.
	Research news The hidden transcriptome Jonathan B Weitzman Genome Biology 2002, 3:spotlight-20020507-02 (7 May 2002) Abstract \| Full text \| Editor’s summary An array-guided approach has uncovered thousands of undiscovered transcribed regions in the human genome.
	Research news Display of targets in multiple sclerosis Tudor Toma Genome Biology 2002, 3:spotlight-20020507-01 (7 May 2002) Abstract \| Full text \| Editor’s summary Gene-microarray analysis of multiple sclerosis lesions reveals molecular mechanisms and new therapeutic targets
	Research news Splicing chips Jonathan B Weitzman Genome Biology 2002, 3:spotlight-20020507-03 (7 May 2002) Abstract \| Full text \| Editor’s summary Researchers have designed a splicing-specific microarray assay to investigate mRNA processing in yeast.
	Research news Annotation by SAGE Jonathan B Weitzman Genome Biology 2002, 3:spotlight-20020508-02 (8 May 2002) Abstract \| Full text \| Editor’s summary The inventors of SAGE technology describe a modified method to facilitate gene discovery.
	Research news Error-prone mitochondria Tudor Toma Genome Biology 2002, 3:spotlight-20020508-01 (8 May 2002) Abstract \| Full text \| Editor’s summary A point mutation in mitochondrial DNA polymerase ? causes error-prone DNA synthesis in progressive external ophthalmoplegia
	Research news Anthrax genomics Jonathan B Weitzman Genome Biology 2002, 3:spotlight-20020509-02 (9 May 2002) Abstract \| Full text \| Editor’s summary Comparative bacterial genomics offers tools in the war against bioterrorism.
	Research news Streptomyces coelicolor genome Tudor Toma Genome Biology 2002, 3:spotlight-20020509-01 (9 May 2002) Abstract \| Full text \| Editor’s summary The complete Streptomyces coelicolor genome reveals many of the adaptations necessary for life in the highly competitive soil environment.
	Research news Housekeeping clusters Jonathan B Weitzman Genome Biology 2002, 3:spotlight-20020510-01 (10 May 2002) Abstract \| Full text \| Editor’s summary There is controversy over the function of large clusters of co-expressed genes in the human genome.
	Research news 2002 Royal Society Fellows David Bruce Genome Biology 2002, 3:spotlight-20020513-01 (13 May 2002) Abstract \| Full text \| Editor’s summary The UK's Royal Society has announced the election of 42 new Fellows and six Foreign Members.
	Research news Choosing the X Jonathan B Weitzman Genome Biology 2002, 3:spotlight-20020513-02 (13 May 2002) Abstract \| Full text \| Editor’s summary Genetic crosses in mice have identified autosomal loci that affect the choice of X chromosome to be inactivated.
	Research news Chromatin control during the cell cycle Jonathan B Weitzman Genome Biology 2002, 3:spotlight-20020514-01 (14 May 2002) Abstract \| Full text \| Editor’s summary A large macromolecular complex regulates chromatin conformation and gene transcription during the cell cycle.
	Research news From genes to disease Jonathan B Weitzman Genome Biology 2002, 3:spotlight-20020515-01 (15 May 2002) Abstract \| Full text \| Editor’s summary Bioinformatics approaches can help find promising candidate genes associated with genetic diseases.
	Research news A WiNTers tale Jonathan B Weitzman Genome Biology 2002, 3:spotlight-20020516-02 (16 May 2002) Abstract \| Full text \| Editor’s summary The Xenopus NF-AT transcription factor acts as a downstream component of the WNT/calcium signalling pathway.
	Research news Can sequences turn a profit? Tabitha M Powledge Genome Biology 2002, 3:spotlight-20020516-01 (16 May 2002) Abstract \| Full text \| Editor’s summary The public release of the draft mouse genome sequence reopens the debate on the commercial viability of genome sequencing.
	Research news Bacterial ancestors Jonathan B Weitzman Genome Biology 2002, 3:spotlight-20020517-01 (17 May 2002) Abstract \| Full text \| Editor’s summary Analysis of ribosomal RNA sequences in bacteria suggests that the earliest organisms were not hyperthermophiles.
	Research news Virus-induced RNA silencing Jonathan B Weitzman Genome Biology 2002, 3:spotlight-20020520-01 (20 May 2002) Abstract \| Full text \| Editor’s summary RNA silencing is shown to be part of an adaptive antiviral defence in animal cells.
	Research news Sex determination in fish Jonathan B Weitzman Genome Biology 2002, 3:spotlight-20020521-01 (21 May 2002) Abstract \| Full text \| Editor’s summary Genetic analysis of medaka fish has identified a gene on the Y chromosome that is required for male development.
	Research news A proven role for methylation Jonathan B Weitzman Genome Biology 2002, 3:spotlight-20020522-02 (22 May 2002) Abstract \| Full text \| Editor’s summary A clear example of cell-type-specific gene regulation by cytosine methylation has been described in epithelial cells.
	Research news Stephen Jay Gould dies Hal Cohen Genome Biology 2002, 3:spotlight-20020522-01 (22 May 2002) Abstract \| Full text \| Editor’s summary Controversial evolutionary biologist succumbs to cancer he had battled for 20 years.
	Research news Oncogenic phosphatase amplification Jonathan B Weitzman Genome Biology 2002, 3:spotlight-20020523-01 (23 May 2002) Abstract \| Full text \| Editor’s summary Amplification of a genomic locus encoding a phosphatase modulates tumor suppression.
	Research news Haplotype blocks Jonathan B Weitzman Genome Biology 2002, 3:spotlight-20020524-01 (24 May 2002) Abstract \| Full text \| Editor’s summary Large scale genomic analysis provides evidence for extensive blocks of common haplotpyes within the human genome.
	Research news US genome sequencing priorities decided Tabitha M Powledge Genome Biology 2002, 3:spotlight-20020524-02 (24 May 2002) Abstract \| Full text \| Editor’s summary The chicken genome will be among the next to be sequenced, and so will that of humanity's closest relative.
	Research news Manipulating mosquitoes and malaria Jonathan B Weitzman Genome Biology 2002, 3:spotlight-20020527-01 (27 May 2002) Abstract \| Full text \| Editor’s summary Transgenic mosquitoes may prove to be effective weapons in the war against malaria.
	Research news Comparing Xanthomonas Jonathan B Weitzman Genome Biology 2002, 3:spotlight-20020528-01 (28 May 2002) Abstract \| Full text \| Editor’s summary Comparison of the sequence of two phytopathogen genomes reveals insights into the molecular basis for host specificity and pathogenicity.
	Research news Cow clones Jonathan B Weitzman Genome Biology 2002, 3:spotlight-20020529-01 (29 May 2002) Abstract \| Full text \| Editor’s summary Analysis of X-chromosome inactivation in bovine clones reveals defects in epigenetic regulation.
	Research news Inventory of secreted proteins Jonathan B Weitzman Genome Biology 2002, 3:spotlight-20020530-01 (30 May 2002) Abstract \| Full text \| Editor’s summary Genomic sequence analysis identifies pathogenicity proteins secreted into host cells by a plant pathogen.
	Research news Genomic duplication Jonathan B Weitzman Genome Biology 2002, 3:spotlight-20020531-01 (31 May 2002) Abstract \| Full text \| Editor’s summary Analysis of the human genome sequence provides evidence for extensive duplication events during vertebrate evolution.
	Research
	Research Microarray profile of differentially expressed genes in a monkey model of allergic asthma Jun Zou, Simon Young, Feng Zhu, Ferdous Gheyas, Susan Skeans, Yuntao Wan, Luquan Wang, Wei Ding, Motasim Billah, Terri McClanahan, Robert L Coffman, Robert Egan, Shelby Umland Genome Biology 2002, 3:research0020-research0020.13 (11 April 2002) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central \| F1000 Biology \| Editor’s summary Inhalation of Ascaris suum antigen by allergic monkeys causes an immediate bronchoconstriction and delayed allergic reaction. Monkeys were challenged by A. suum antigen or by interleukin-4 and the gene-expression pattern profiled. Expression levels of 149 genes changed by more than 2.5-fold.
	Research Doxycycline-induced expression of sense and inverted-repeat constructs modulates phosphogluconate mutase (Pgm) gene expression in adult Drosophila melanogaster Michael J Allikian, Denise Deckert-Cruz, Michael R Rose, Gary N Landis, John Tower Genome Biology 2002, 3:research0021-research0021.10 (15 April 2002) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central \| Editor’s summary A tetracycline-regulated (conditional) system for RNA interference (RNAi) would have many practical applications. Such a strategy was developed using RNAi of the gene for phosphogluconate mutase (Pgm).
	Research How many replicates of arrays are required to detect gene expression changes in microarray experiments? A mixture model approach Wei Pan, Jizhen Lin, Chap T Le Genome Biology 2002, 3:research0022-research0022.10 (22 April 2002) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central \| Editor’s summary The question of how many replicates are required to detect differentially expressed genes in microarray experiments has barely been addressed. Here, the issue of how to calculate the number of replicates in the context of applying a nonparametric statistical method is discussed.
	Research The GOLD domain, a novel protein module involved in Golgi function and secretion Vivek Anantharaman, L Aravind Genome Biology 2002, 3:research0023-research0023.7 (24 April 2002) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central \| Editor’s summary Members of the p24 family of proteins have been shown to be components of the coated vesicles that are involved in the transportation of molecules from the endoplasmic reticulum to the Golgi complex. A sequence-profile analysis method was used to identify a β-strand-rich domain, the GOLD domain, in the p24 proteins and several other proteins with roles in Golgi dynamics and secretion.
	Research Evolution of gene fusions: horizontal transfer versus independent events Itai Yanai, Yuri I Wolf, Eugene V Koonin Genome Biology 2002, 3:research0024-research0024.13 (26 April 2002) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central \| Editor’s summary The evolutionary history of gene fusions was studied by phylogenetic analysis. Of the 51 gene fusions studied, 31 were most probably disseminated by cross-kingdom horizontal gene transfer, 14 appeared to have evolved independently in different kingdoms and two were probably inherited from a common ancestor.
	Research Lateral gene transfer and parallel evolution in the history of glutathione biosynthesis genes Shelley D Copley, Jasvinder K Dhillon Genome Biology 2002, 3:research0025-research0025.16 (29 April 2002) Abstract \| Full text \| PDF \| PubMed \| Editor’s summary To evaluate the evolutionary history of the Glutathione pathway bioinformatics was used to analyze sequences of the biosynthetic enzymes γ-glutamylcysteine ligase and glutathione synthetase. γ-Glutamylcysteine ligase sequences fall into three groups: sequences primarily from gamma-proteobacteria; sequences from non-plant eukaryotes; and sequences primarily from alpha-proteobacteria and plants. Conserved sequence motifs are found, suggesting that the proteins are distantly related. The data suggest numerous examples of lateral gene transfer and a common structrual fold.

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Volume 3 Issue 5

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