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What is genomics

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<p>&nbsp;</p>
<h2><span id="Bacteriophage_genomics" class="mw-headline">Bacteriophage genomics</span></h2>
<p><a title="Bacteriophage" href="http://en.wikipedia.org/wiki/Bacteriophage"><span style="font-size: medium;">Bacteriophages</span></a><span style="font-size: medium;"> have played and continue to play a key role in bacterial </span><a title="Genetics" href="http://en.wikipedia.org/wiki/Genetics"><span style="font-size: medium;">genetics</span></a><span style="font-size: medium;"> and </span><a title="Molecular biology" href="http://en.wikipedia.org/wiki/Molecular_biology"><span style="font-size: medium;">molecular biology</span></a><span style="font-size: medium;">. Historically, they were used to define </span><a title="Gene" href="http://en.wikipedia.org/wiki/Gene"><span style="font-size: medium;">gene</span></a><span style="font-size: medium;"> structure and gene regulation. Also the first </span><a title="Genome" href="http://en.wikipedia.org/wiki/Genome"><span style="font-size: medium;">genome</span></a><span style="font-size: medium;"> to be sequenced was a </span><a title="Bacteriophage" href="http://en.wikipedia.org/wiki/Bacteriophage"><span style="font-size: medium;">bacteriophage</span></a><span style="font-size: medium;">. However, bacteriophage research did not lead the genomics revolution, which is clearly dominated by bacterial genomics. Only very recently has the study of bacteriophage genomes become prominent, thereby enabling researchers to understand the mechanisms underlying </span><a class="mw-redirect" title="Phage" href="http://en.wikipedia.org/wiki/Phage"><span style="font-size: medium;">phage</span></a><span style="font-size: medium;"> evolution. Bacteriophage genome sequences can be obtained through direct sequencing of isolated bacteriophages, but can also be derived as part of microbial genomes. Analysis of bacterial genomes has shown that a substantial amount of microbial DNA consists of </span><a title="Prophage" href="http://en.wikipedia.org/wiki/Prophage"><span style="font-size: medium;">prophage</span></a><span style="font-size: medium;"> sequences and prophage-like elements. A detailed database mining of these sequences offers insights into the role of prophages in shaping the bacterial genome.</span><sup class="reference" id="cite_ref-McGrath_10-0"><a href="http://en.wikipedia.org/wiki/Genomics#cite_note-McGrath-10"><spanstyle="font-size: medium;">[</span>11<span>]</span></a></sup></p>
<p>&nbsp;</p>
<h2><span style="font-size: large;"><span id="Cyanobacteria_genomics" class="mw-headline">Cyanobacteria genomics</span></span></h2><p><span style="font-size: medium;">At present there are 24 </span><a title="Cyanobacteria" href="http://en.wikipedia.org/wiki/Cyanobacteria"><span style="font-size: medium;">cyanobacteria</span></a><span style="font-size: medium;"> for which a total genome sequence is available. 15 of these cyanobacteria come from the marine environment. These are six </span><i><a title="Prochlorococcus" href="http://en.wikipedia.org/wiki/Prochlorococcus"><span style="font-size: medium;">Prochlorococcus</span></a></i><span style="font-size: medium;"> strains, seven marine </span><i><a title="Synechococcus" href="http://en.wikipedia.org/wiki/Synechococcus"><span style="font-size: medium;">Synechococcus</span></a></i><span style="font-size: medium;"> strains, </span><i><a title="Trichodesmium erythraeum (page does not exist)" class="new" href="http://en.wikipedia.org/w/index.php?title=Trichodesmium_erythraeum&amp;action=edit&amp;redlink=1"><span style="font-size: medium;">Trichodesmium erythraeum</span></a></i><span style="font-size: medium;"> IMS101 and </span><i><a title="Crocosphaera watsonii (page does not exist)" class="new" href="http://en.wikipedia.org/w/index.php?title=Crocosphaera_watsonii&amp;action=edit&amp;redlink=1"><span style="font-size: medium;">Crocosphaera watsonii</span></a></i> <a title="WH8501 (page does not exist)" class="new" href="http://en.wikipedia.org/w/index.php?title=WH8501&amp;action=edit&amp;redlink=1"><span style="font-size: medium;">WH8501</span></a><span style="font-size: medium;">. Several studies have demonstrated how these sequences could be used very successfully to infer important ecological and physiological characteristics of marine cyanobacteria. However, there are many more genome projects currently in progress, amongst those there are further </span><i><a title="Prochlorococcus" href="http://en.wikipedia.org/wiki/Prochlorococcus"><span style="font-size: medium;">Prochlorococcus</span></a></i><span style="font-size: medium;"> and marine </span><i><a title="Synechococcus" href="http://en.wikipedia.org/wiki/Synechococcus"><span style="font-size: medium;">Synechococcus</span></a></i><span style="font-size: medium;"> isolates, </span><i><a title="Acaryochloris (page does not exist)" class="new" href="http://en.wikipedia.org/w/index.php?title=Acaryochloris&amp;action=edit&amp;redlink=1"><span style="font-size: medium;">Acaryochloris</span></a></i><span style="font-size: medium;"> and </span><i><a title="Prochloron" href="http://en.wikipedia.org/wiki/Prochloron"><span style="font-size: medium;">Prochloron</span></a></i><span style="font-size: medium;">, the N<sub>2</sub>-fixing filamentous cyanobacteria </span><i><a title="Nodularia spumigena (page does not exist)" class="new" href="http://en.wikipedia.org/w/index.php?title=Nodularia_spumigena&amp;action=edit&amp;redlink=1"><span style="font-size: medium;">Nodularia spumigena</span></a></i><span style="font-size: medium;">, </span><i><a title="Lyngbya aestuarii (page does not exist)" class="new" href="http://en.wikipedia.org/w/index.php?title=Lyngbya_aestuarii&amp;action=edit&amp;redlink=1"><span style="font-size: medium;">Lyngbya aestuarii</span></a></i><span style="font-size: medium;"> and </span><i><a title="Lyngbya majuscula" href="http://en.wikipedia.org/wiki/Lyngbya_majuscula"><span style="font-size: medium;">Lyngbya majuscula</span></a></i><span style="font-size: medium;">, as well as </span><a title="Bacteriophage" href="http://en.wikipedia.org/wiki/Bacteriophage"><span style="font-size: medium;">bacteriophages</span></a><span style="font-size: medium;"> infecting marine cyanobaceria. Thus, the growing body of genome information can also be tapped in a more general way to address global problems by applying a comparative approach. Some new and exciting examples of progress in this field are the identification of genes for regulatory RNAs, insights into the evolutionary origin of </span><a title="Photosynthesis" href="http://en.wikipedia.org/wiki/Photosynthesis"><span style="font-size: medium;">photosynthesis</span></a><span style="font-size: medium;">, or estimation of the contribution of horizontal gene transfer to the genomes that have been analyzed.</span><sup class="reference" id="cite_ref-Herrero_11-0"><a href="http://en.wikipedia.org/wiki/Genomics#cite_note-Herrero-11"><spanstyle="font-size: medium;">[</span>12<span>]</span></a></sup></p><p><span style="font-size: medium;">&nbsp;</span></p><h2><span style="font-size: large;"><span id="See_also" class="mw-headline">See also</span></span></h2>
<ul>
<li><a class="mw-redirect" title="Full Genome Sequencing" href="http://en.wikipedia.org/wiki/Full_Genome_Sequencing"><span style="font-size: medium;">Full Genome Sequencing</span></a></li> <li><a title="Computational genomics" href="http://en.wikipedia.org/wiki/Computational_genomics"><span style="font-size: medium;">Computational genomics</span></a></li> <li><a title="Nitrogenomics (page does not exist)" class="new" href="http://en.wikipedia.org/w/index.php?title=Nitrogenomics&amp;action=edit&amp;redlink=1"><span style="font-size: medium;">Nitrogenomics</span></a></li> <li><a title="Metagenomics" href="http://en.wikipedia.org/wiki/Metagenomics"><span style="font-size: medium;">Metagenomics</span></a></li> <li><a class="mw-redirect" title="Predictive Medicine" href="http://en.wikipedia.org/wiki/Predictive_Medicine"><span style="font-size: medium;">Predictive Medicine</span></a></li> <li><a title="Personal genomics" href="http://en.wikipedia.org/wiki/Personal_genomics"><span style="font-size: medium;">Personal genomics</span></a></li> <li><a class="mw-redirect" title="Psychogenomics" href="http://en.wikipedia.org/wiki/Psychogenomics"><span style="font-size: medium;">Psychogenomics</span></a></li>
</ul>
<p><span style="font-size: medium;">&nbsp;</span></p><h2><span style="font-size: large;"><span id="References" class="mw-headline">References</span></span></h2>
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<ol class="references">
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<a classli id="external textcite_note-3" rel><span style="nofollowfont-size: small;" ><b><a href="http://wwwen.ncbiwikipedia.nlm.nih.govorg/pubmedwiki/870828Genomics#cite_ref-3">870828^</a>.</spanb></lispan> <li idspan style="cite_notefont-4size: small;"><b><a hrefspan class="http://encitation Journal">Sanger F, Air GM, Barrell BG, Brown NL, Coulson AR, Fiddes CA, Hutchison CA, Slocombe PM, Smith M (1977).wikipedia.org&quot;Nucleotide sequence of bacteriophage phi X174 DNA&quot;. <i>Nature</wiki/Genomics#cite_ref-4"i>^</ab>265</b> <span class(5596): 687&ndash;695. </span></span><span class="citation Journal">Fleischmann RD, Adams MD, White O, Clayton RA, Kirkness EF, Kerlavage AR, Bult CJ, Tomb JF, Dougherty BA, Merrick JM, et al<a title="Digital object identifier" href="http://en. (1995)wikipedia. &quot;Whole-genome random sequencing and assembly of Haemophilus influenzae Rd&quot;. <i>Science<org/wiki/iDigital_object_identifier"> <bspan style="font-size: small;">doi</span>269</ba> (5223)<span style="font-size: 496&ndashsmall;512. ">:</span><a title="Digital object identifier" href="http://en.wikipedia.org/wiki/Digital_object_identifier">doi</a>:<a classclass="external text" rel="nofollow" href="http://dx.doi.org/10.11261038%2Fscience.75428002F265687a0"><span style="font-size: small;">10.11261038/265687a0</science.7542800span></a><span style="font-size: small;">. </span><a class="mw-redirect" title="PubMed Identifier" href="http://en.wikipedia.org/wiki/PubMed_Identifier">PMID<span style="font-size: small;">PMID</span></a><span style="font-size: small;">&nbsp;</span><a class="external text" rel="nofollow" href="http://www.ncbi.nlm.nih.gov/pubmed/7542800870828">7542800</a>.</span style="font-size: small;">870828</span></lia></span> <li idspan style="cite_notefont-5size: small;"><b><a hrefspan class="http://encitation Journal">.wikipedia.org</wiki/Genomics#cite_ref-5"span>^</aspan></bli> <a classli id="external textcite_note-4" rel><span style="nofollowfont-size: small;" ><b><a href="http://wwwen.ncbiwikipedia.nlm.nih.govorg/genomeswiki/VIRUSES/virostat.htmlGenomics#cite_ref-4"><i>The Viral Genomes Resource^</ia>, NCBI Friday, 14 September 2007</ab></lispan> <li idspan style="cite_notefont-6size: small;"><b><a hrefspan class="http://en.wikipedia.org/wiki/Genomics#cite_ref-6citation Journal">^</a></b> <a class="external text" rel="nofollow" href="http://wwwFleischmann RD, Adams MD, White O, Clayton RA, Kirkness EF, Kerlavage AR, Bult CJ, Tomb JF, Dougherty BA, Merrick JM, et al.ncbi(1995).nlm&quot;Whole-genome random sequencing and assembly of Haemophilus influenzae Rd&quot;.nih.gov/genomes/static/gpstat.html"><<i>Genome Project StatisticScience</i>, NCBI Friday, 14 September 2007</ab>269</lib> <li id(5223): 496&ndash;512. </span></span><span class="cite_note-7citation Journal"><b><a title="Digital object identifier" href="http://en.wikipedia.org/wiki/Genomics#cite_refDigital_object_identifier"><span style="font-7size: small;">^doi</span></a><span style="font-size: small;">:</bspan> <a class="external text" rel="nofollow" href="http://newsdx.bbcdoi.coorg/10.uk/1/hi/sci/tech/37607661126%2Fscience.stm7542800">BBC article <ispan style="font-size: small;">Human gene number slashed<10.1126/i> from Wednesday, 20 October 2004science.7542800</aspan></lia> <li idspan style="cite_notefont-8size: small;">. <b/span><a hrefclass="http:/mw-redirect" title="PubMed Identifier" href="http://en.wikipedia.org/wiki/Genomics#cite_refPubMed_Identifier"><span style="font-8size: small;">^PMID</aspan></ba> <a classspan style="font-size: small;">&nbsp;</span><a class="external text" rel="nofollow" href="http://www.cbsencbi.nlm.ucscnih.edugov/newspubmed/2003/10/167542800"><span style="font-size: small;">7542800</pufferfish_fruitfly/index.shtml"span>CBSE News, Thursday, 16 October 2003</a></lispan> <li idspan style="cite_notefont-9size: small;"><b><a hrefspan class="http://encitation Journal">.wikipedia.org</wiki/Genomics#cite_ref-9"span>^</aspan></bli> <a classli id="external textcite_note-5" rel><span style="nofollowfont-size: small;" ><b><a href="http://wwwen.genomewikipedia.govorg/wiki/12511476Genomics#cite_ref-5">NHGRI, pressrelease of the publishing of the dog genome^</a></lib> <li id="cite_note-McGrath-10"><b/span><a hrefclass="http:external text" rel="nofollow" href="http://enwww.ncbi.nlm.wikipedianih.orggov/genomes/wikiVIRUSES/Genomics#cite_ref-McGrath_10-0virostat.html">^</aspan style="font-size: small;"><i>The Viral Genomes Resource</bi> , NCBI Friday, 14 September 2007</span class="citation book">McGrath S and van Sinderen D, ed (2007). <a class/a></li> <li id="external textcite_note-6" rel><span style="nofollowfont-size: small;" ><b><a href="http://wwwen.horizonpresswikipedia.comorg/wiki/phageGenomics#cite_ref-6">^<i/a>Bacteriophage: Genetics and Molecular Biology</ib></span><a> (1st ed.). Caister Academic Press. <a titleclass="external text" rel="International Standard Book Numbernofollow" href="http://enwww.ncbi.nlm.wikipedianih.orggov/wikigenomes/International_Standard_Book_Numberstatic/gpstat.html">ISBN</a>&nbsp;<a titlespan style="Specialfont-size:BookSources/978-1-904455-14-1small;" href="http:><i>Genome Project Statistic</i>, NCBI Friday, 14 September 2007</en.wikipedia.orgspan></wikia></Special:BookSources/978-1-904455-14-1">978-1-904455-14-1</a>.</span></li>li> <li id="cite_note-Herrero7"><span style="font-11size: small;"><b><a href="http://en.wikipedia.org/wiki/Genomics#cite_ref-Herrero_11-07">^</a></b> </span class="citation book">Herrero A and Flores E, ed (2008). <a class="external text" rel="nofollow" href="http://wwwnews.horizonpressbbc.comco.uk/1/hi/sci/tech/cyan3760766.stm"><ispan style="font-size: small;">The Cyanobacteria: Molecular Biology, Genomics and EvolutionBBC article </i>Human gene number slashed</i> from Wednesday, 20 October 2004</span></a> (1st ed.). Caister Academic Press. <a title="International Standard Book Number/li> <li id="cite_note-8"><span style="font-size: small;" ><b><a href="http://en.wikipedia.org/wiki/International_Standard_Book_NumberGenomics#cite_ref-8">ISBN^</a>&nbsp;</b></span><a titleclass="external text" rel="Special:BookSources/978-1-904455-15-8nofollow" href="http://en.wikipedia.org/wiki/Special:BookSources/978-1-904455-15-8">978-1-904455-15-8</awww.cbse.ucsc.edu/news/2003/10/16/pufferfish_fruitfly/index.shtml"><span style="font-size: small;">CBSE News, Thursday, 16 October 2003</span></a></li> <li id="cite_note-9"><span style="font-size: small;"><b><a href="http://en.wikipedia.org/wiki/Genomics#cite_ref-9">^</a></b></span><a class="external text" rel="nofollow" href="http://www.genome.gov/12511476"><span style="font-size: small;">NHGRI, pressrelease of the publishing of the dog genome</span></a></li> <li id="cite_note-McGrath-10"><span style="font-size: small;"><b><a href="http://en.wikipedia.org/wiki/Genomics#cite_ref-McGrath_10-0">^</a></b></span><span style="font-size: small;"> <span class="citation book">McGrath S and van Sinderen D, ed (2007). </span></span><span class="citation book"><a class="external text" rel="nofollow" href="http://www.horizonpress.com/phage"><span style="font-size: small;"><i>Bacteriophage: Genetics and Molecular Biology</i></span></a><span style="font-size: small;"> (1st ed.). Caister Academic Press. </span><a title="International Standard Book Number" href="http://en.wikipedia.org/wiki/International_Standard_Book_Number"><span style="font-size: small;">ISBN</span></a><span style="font-size: small;">&nbsp;</span><a title="Special:BookSources/978-1-904455-14-1" href="http://en.wikipedia.org/wiki/Special:BookSources/978-1-904455-14-1"><span style="font-size: small;">978-1-904455-14-1</span></a></span><span style="font-size: small;"><span class="citation book">.</span></span></li> <li id="cite_note-Herrero-11"><span style="font-size: small;"><b><a href="http://en.wikipedia.org/wiki/Genomics#cite_ref-Herrero_11-0">^</a></b></span><span style="font-size: small;"> <span class="citation book">Herrero A and Flores E, ed (2008). </span></span><span class="citation book"><a class="external text" rel="nofollow" href="http://www.horizonpress.com/cyan"><span style="font-size: small;"><i>The Cyanobacteria: Molecular Biology, Genomics and Evolution</i></span></a><span style="font-size: small;"> (1st ed.). Caister Academic Press. </span><a title="International Standard Book Number" href="http://en.wikipedia.org/wiki/International_Standard_Book_Number"><span style="font-size: small;">ISBN</span></a><span style="font-size: small;">&nbsp;</span><a title="Special:BookSources/978-1-904455-15-8" href="http://en.wikipedia.org/wiki/Special:BookSources/978-1-904455-15-8"><span style="font-size: small;">978-1-904455-15-8</span></a></span><span style="font-size: small;"><span class="citation book">.</span>.</span></li>
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<h2><span id="External_links" class="mw-headline">External links</span></h2>
<ul>
<li><a class="external text" rel="nofollow" href="http://www.genomicsdirectory.com/"><span style="font-size: medium;">Genomics Directory</span></a><span style="font-size: medium;">: A one-stop biotechnology resource center for bioentrepreneurs, scientists, and students</span></li> <li><a class="external text" rel="nofollow" href="http://arjournals.annualreviews.org/loi/genom/"><span style="font-size: medium;">Annual Review of Genomics and Human Genetics</span></a></li> <li><a class="external text" rel="nofollow" href="http://www.biomedcentral.com/bmcgenomics/"><span style="font-size: medium;">BMC Genomics</span></a><span style="font-size: medium;">: A BMC journal on Genomics</span></li> <li><a class="external text" rel="nofollow" href="http://www.caglab.org/"><span style="font-size: medium;">Center for Applied Genomics</span></a><span style="font-size: medium;">: Genomics Research - a specialized Center of Emphasis at the Children&rsquo;s Hospital of Philadelphia</span></li> <li><a class="external text" rel="nofollow" href="http://www.genomics.co.uk/companylist.php"><span style="font-size: medium;">Genomics</span></a><span style="font-size: medium;">: UK companies and laboratories* </span><a class="external text" rel="nofollow" href="http://www.elsevier.com/wps/find/journaldescription.cws_home/622838/description#description"><span style="font-size: medium;">Genomics journal</span></a></li> <li><a class="external text" rel="nofollow" href="http://www.knoblauchpublishing.com/"><span style="font-size: medium;">Genomics and Quantitative Genetics</span></a><span style="font-size: medium;">: An international electronic, open access journal publishing, inter alia, genomics research.</span></li> <li><a class="external text" rel="nofollow" href="../../../"><span style="font-size: medium;">Genomics.org</span></a><span style="font-size: medium;">: An openfree wiki based Genomics portal</span></li> <li><a class="external text" rel="nofollow" href="http://www.genome.gov/"><span style="font-size: medium;">NHGRI</span></a><span style="font-size: medium;">: US government's genome institute</span></li> <li><a class="external text" rel="nofollow" href="http://www.springer.com/humana+press/pharmacology+and+toxicology/book/978-1-58829-887-4"><span style="font-size: medium;">Pharmacogenomics in Drug Discovery and Development</span></a><span style="font-size: medium;">, a book on pharmacogenomics, diseases, personalized medicine, and therapeutics</span></li> <li><a class="external text" rel="nofollow" href="http://www.zpu-journal.ru/en/articles/detail.php?ID=342"><span style="font-size: medium;">Tishchenko P. D. Genomics: New Science in the New Cultural Situation</span></a></li> <li><a class="external text" rel="nofollow" href="http://www.lcg.unam.mx/"><span style="font-size: medium;">Undergraduate program on Genomic Sciences (spanish)</span></a><span style="font-size: medium;">: One of the first undergraduate programs in the world</span></li> <li><a class="external text" rel="nofollow" href="http://cmr.jcvi.org/"><span style="font-size: medium;">JCVI Comprehensive Microbial Resource</span></a></li> <li><a class="external text" rel="nofollow" href="http://pathema.jcvi.org/"><span style="font-size: medium;">Pathema: A Clade Specific Bioinformatics Resource Center</span></a></li> <li><a class="external text" rel="nofollow" href="http://koreagenome.org/"><span style="font-size: medium;">KoreaGenome.org</span></a><span style="font-size: medium;">: The first Korean Genome published and the sequence is available freely.</span></li> <li><a class="external text" rel="nofollow" href="http://genomicsnetwork.ac.uk/"><span style="font-size: medium;">GenomicsNetwork</span></a><span style="font-size: medium;">: Looks at the development and use of the science and technologies of genomics.</span></li> <li><a class="external text" rel="nofollow" href="http://www.igs.umaryland.edu/research_topics.php"><span style="font-size: medium;">Institute for Genome Sciences</span></a><span style="font-size: medium;">: Genomics research.</span></li> <li><a class="external text" rel="nofollow" href="http://ocw.mit.edu/courses/health-sciences-and-technology/hst-512-genomic-medicine-spring-2004/"><span style="font-size: medium;">MIT OpenCourseWare HST.512 Genomic Medicine</span></a><span style="font-size: medium;"> A free, self-study course in genomic medicine. Resources include audio lectures and selected lecture notes.</span></li> <li><a class="external text" rel="nofollow" href="http://www.extension.org/plant_breeding_genomics"><span style="font-size: medium;">The Plant Breeding and Genomics Community of Practice on eXtension</span></a><span style="font-size: medium;"> - provides education and training materials for plant breeders and allied professionals</span></li>
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