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      Queen Conch ( Strombus gigas) Testis Regresses during the Reproductive Season at Nearshore Sites in the Florida Keys

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          Abstract

          Background

          Queen conch ( Strombus gigas) reproduction is inhibited in nearshore areas of the Florida Keys, relative to the offshore environment where conchs reproduce successfully. Nearshore reproductive failure is possibly a result of exposure to environmental factors, including heavy metals, which are likely to accumulate close to shore. Metals such as Cu and Zn are detrimental to reproduction in many mollusks.

          Methodology/Principal Findings

          Histology shows gonadal atrophy in nearshore conchs as compared to reproductively healthy offshore conchs. In order to determine molecular mechanisms leading to tissue changes and reproductive failure, a microarray was developed. A normalized cDNA library for queen conch was constructed and sequenced using the 454 Life Sciences GS-FLX pyrosequencer, producing 27,723 assembled contigs and 7,740 annotated transcript sequences. The resulting sequences were used to design the microarray. Microarray analysis of conch testis indicated differential regulation of 255 genes (p<0.01) in nearshore conch, relative to offshore. Changes in expression for three of four transcripts of interest were confirmed using real-time reverse transcription polymerase chain reaction. Gene Ontology enrichment analysis indicated changes in biological processes: respiratory chain (GO:0015992), spermatogenesis (GO:0007283), small GTPase-mediated signal transduction (GO:0007264), and others. Inductively coupled plasma-mass spectrometry analysis indicated that Zn and possibly Cu were elevated in some nearshore conch tissues.

          Conclusions/Significance

          Congruence between testis histology and microarray data suggests that nearshore conch testes regress during the reproductive season, while offshore conch testes develop normally. Possible mechanisms underlying the testis regression observed in queen conch in the nearshore Florida Keys include a disruption of small GTPase (Ras)-mediated signaling in testis development. Additionally, elevated tissue levels of Cu (34.77 ng/mg in testis) and Zn (831.85 ng/mg in digestive gland, 83.96 ng/mg in testis) nearshore are similar to reported levels resulting in reproductive inhibition in other gastropods, indicating that these metals possibly contribute to NS conch reproductive failure.

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          Most cited references45

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          Cluster analysis and display of genome-wide expression patterns.

          A system of cluster analysis for genome-wide expression data from DNA microarray hybridization is described that uses standard statistical algorithms to arrange genes according to similarity in pattern of gene expression. The output is displayed graphically, conveying the clustering and the underlying expression data simultaneously in a form intuitive for biologists. We have found in the budding yeast Saccharomyces cerevisiae that clustering gene expression data groups together efficiently genes of known similar function, and we find a similar tendency in human data. Thus patterns seen in genome-wide expression experiments can be interpreted as indications of the status of cellular processes. Also, coexpression of genes of known function with poorly characterized or novel genes may provide a simple means of gaining leads to the functions of many genes for which information is not available currently.
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            Ras oncogenes: split personalities.

            Extensive research on the Ras proteins and their functions in cell physiology over the past 30 years has led to numerous insights that have revealed the involvement of Ras not only in tumorigenesis but also in many developmental disorders. Despite great strides in our understanding of the molecular and cellular mechanisms of action of the Ras proteins, the expanding roster of their downstream effectors and the complexity of the signalling cascades that they regulate indicate that much remains to be learnt.
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              BABELOMICS: a suite of web tools for functional annotation and analysis of groups of genes in high-throughput experiments

              We present Babelomics, a complete suite of web tools for the functional analysis of groups of genes in high-throughput experiments, which includes the use of information on Gene Ontology terms, interpro motifs, KEGG pathways, Swiss-Prot keywords, analysis of predicted transcription factor binding sites, chromosomal positions and presence in tissues with determined histological characteristics, through five integrated modules: FatiGO (fast assignment and transference of information), FatiWise, transcription factor association test, GenomeGO and tissues mining tool, respectively. Additionally, another module, FatiScan, provides a new procedure that integrates biological information in combination with experimental results in order to find groups of genes with modest but coordinate significant differential behaviour. FatiScan is highly sensitive and is capable of finding significant asymmetries in the distribution of genes of common function across a list of ordered genes even if these asymmetries were not extreme. The strong multiple-testing nature of the contrasts made by the tools is taken into account. All the tools are integrated in the gene expression analysis package GEPAS. Babelomics is the natural evolution of our tool FatiGO (which analysed almost 22 000 experiments during the last year) to include more sources on information and new modes of using it. Babelomics can be found at .
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                Author and article information

                Contributors
                Role: Editor
                Journal
                PLoS One
                plos
                plosone
                PLoS ONE
                Public Library of Science (San Francisco, USA )
                1932-6203
                2010
                15 September 2010
                : 5
                : 9
                : e12737
                Affiliations
                [1 ]Department of Physiological Sciences and Center for Environmental and Human Toxicology, University of Florida, Gainesville, Florida, United States of America
                [2 ]Interdisciplinary Center for Biotechnology Research, University of Florida, Gainesville, Florida, United States of America
                [3 ]Department of Coastal Sciences, University of Southern Mississippi, Ocean Springs, Mississippi, United States of America
                [4 ]Fish and Wildlife Research Institute, Florida Fish and Wildlife Conservation Commission, Marathon, Florida, United States of America
                Temasek Life Sciences Laboratory, Singapore
                Author notes

                Conceived and designed the experiments: DJS RJG KK RAG DB ND. Performed the experiments: DJS RJG NJBP KK AF RAG. Analyzed the data: DJS RJG LL NJBP AF. Contributed reagents/materials/analysis tools: RAG DB ND. Wrote the paper: DJS RJG NJBP AF RAG DB ND.

                [¤]

                Current address: Department of Coastal Sciences, University of Southern Mississippi, Ocean Springs, Mississippi, United States of America

                Article
                10-PONE-RA-18406R1
                10.1371/journal.pone.0012737
                2939879
                20856805
                a323bdd0-209c-4ab6-baff-7b5daec8af02
                Spade et al. This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.
                History
                : 28 April 2010
                : 2 August 2010
                Page count
                Pages: 14
                Categories
                Research Article
                Genetics and Genomics/Functional Genomics
                Genetics and Genomics/Gene Expression
                Molecular Biology/Bioinformatics
                Physiology/Genomics
                Physiology/Reproductive Physiology
                Marine and Aquatic Sciences/Bioinformatics
                Marine and Aquatic Sciences/Fisheries
                Marine and Aquatic Sciences/Genetics, Genomics, and Barcoding

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                Uncategorized

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