Nannochloropsis Genomes Reveal Evolution of Microalgal Oleaginous Traits
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{"title"=>"Nannochloropsis Genomes Reveal Evolution of Microalgal Oleaginous Traits", "type"=>"journal", "authors"=>[{"first_name"=>"Dongmei", "last_name"=>"Wang", "scopus_author_id"=>"55810882100"}, {"first_name"=>"Kang", "last_name"=>"Ning", "scopus_author_id"=>"8887034300"}, {"first_name"=>"Jing", "last_name"=>"Li", "scopus_author_id"=>"56032536200"}, {"first_name"=>"Jianqiang", "last_name"=>"Hu", "scopus_author_id"=>"16222769200"}, {"first_name"=>"Danxiang", "last_name"=>"Han", "scopus_author_id"=>"36134418700"}, {"first_name"=>"Hui", "last_name"=>"Wang", "scopus_author_id"=>"56025139800"}, {"first_name"=>"Xiaowei", "last_name"=>"Zeng", "scopus_author_id"=>"52564642900"}, {"first_name"=>"Xiaoyan", "last_name"=>"Jing", "scopus_author_id"=>"55811343600"}, {"first_name"=>"Qian", "last_name"=>"Zhou", "scopus_author_id"=>"55722121000"}, {"first_name"=>"Xiaoquan", "last_name"=>"Su", "scopus_author_id"=>"53872101500"}, {"first_name"=>"Xingzhi", "last_name"=>"Chang", "scopus_author_id"=>"54791898200"}, {"first_name"=>"Anhui", "last_name"=>"Wang", "scopus_author_id"=>"55636969300"}, {"first_name"=>"Wei", "last_name"=>"Wang", "scopus_author_id"=>"56948600500"}, {"first_name"=>"Jing", "last_name"=>"Jia", "scopus_author_id"=>"55811787100"}, {"first_name"=>"Li", "last_name"=>"Wei", "scopus_author_id"=>"57191581349"}, {"first_name"=>"Yi", "last_name"=>"Xin", "scopus_author_id"=>"55810895500"}, {"first_name"=>"Yinghe", "last_name"=>"Qiao", "scopus_author_id"=>"56031409200"}, {"first_name"=>"Ranran", "last_name"=>"Huang", "scopus_author_id"=>"55796852500"}, {"first_name"=>"Jie", "last_name"=>"Chen", "scopus_author_id"=>"56031908600"}, {"first_name"=>"Bo", "last_name"=>"Han", "scopus_author_id"=>"56031567400"}, {"first_name"=>"Kangsup", "last_name"=>"Yoon", "scopus_author_id"=>"36193532600"}, {"first_name"=>"Russell T.", "last_name"=>"Hill", "scopus_author_id"=>"7404753082"}, {"first_name"=>"Yonathan", "last_name"=>"Zohar", "scopus_author_id"=>"35501670600"}, {"first_name"=>"Feng", "last_name"=>"Chen", "scopus_author_id"=>"57008354100"}, {"first_name"=>"Qiang", "last_name"=>"Hu", "scopus_author_id"=>"37121892900"}, {"first_name"=>"Jian", "last_name"=>"Xu", "scopus_author_id"=>"57102076500"}], "year"=>2014, "source"=>"PLoS Genetics", "identifiers"=>{"sgr"=>"84893754953", "pmid"=>"24415958", "isbn"=>"1553-7390; 1553-7404", "pui"=>"372348865", "issn"=>"15537390", "scopus"=>"2-s2.0-84893754953", "doi"=>"10.1371/journal.pgen.1004094"}, "id"=>"794c73c2-40b9-3357-acc4-6ed85c63d547", "abstract"=>"Oleaginous microalgae are promising feedstock for biofuels, yet the genetic diversity, origin and evolution of oleaginous traits remain largely unknown. Here we present a detailed phylogenomic analysis of five oleaginous Nannochloropsis species (a total of six strains) and one time-series transcriptome dataset for triacylglycerol (TAG) synthesis on one representative strain. Despite small genome sizes, high coding potential and relative paucity of mobile elements, the genomes feature small cores of ca. 2,700 protein-coding genes and a large pan-genome of >38,000 genes. The six genomes share key oleaginous traits, such as the enrichment of selected lipid biosynthesis genes and certain glycoside hydrolase genes that potentially shift carbon flux from chrysolaminaran to TAG synthesis. The eleven type II diacylglycerol acyltransferase genes (DGAT-2) in every strain, each expressed during TAG synthesis, likely originated from three ancient genomes, including the secondary endosymbiosis host and the engulfed green and red algae. Horizontal gene transfers were inferred in most lipid synthesis nodes with expanded gene doses and many glycoside hydrolase genes. Thus multiple genome pooling and horizontal genetic exchange, together with selective inheritance of lipid synthesis genes and species-specific gene loss, have led to the enormous genetic apparatus for oleaginousness and the wide genomic divergence among present-day Nannochloropsis. These findings have important implications in the screening and genetic engineering of microalgae for biofuels.", "link"=>"http://www.mendeley.com/research/nannochloropsis-genomes-reveal-evolution-microalgal-oleaginous-traits", "reader_count"=>127, "reader_count_by_academic_status"=>{"Unspecified"=>4, "Professor > Associate Professor"=>9, "Researcher"=>31, "Student > Doctoral Student"=>4, "Student > Ph. D. Student"=>33, "Student > Postgraduate"=>6, "Other"=>4, "Student > Master"=>21, "Student > Bachelor"=>11, "Professor"=>4}, "reader_count_by_user_role"=>{"Unspecified"=>4, "Professor > Associate Professor"=>9, "Researcher"=>31, "Student > Doctoral Student"=>4, "Student > Ph. D. Student"=>33, "Student > Postgraduate"=>6, "Other"=>4, "Student > Master"=>21, "Student > Bachelor"=>11, "Professor"=>4}, "reader_count_by_subject_area"=>{"Engineering"=>4, "Unspecified"=>9, "Environmental Science"=>3, "Biochemistry, Genetics and Molecular Biology"=>26, "Agricultural and Biological Sciences"=>76, "Chemical Engineering"=>1, "Chemistry"=>1, "Psychology"=>2, "Computer Science"=>1, "Immunology and Microbiology"=>1, "Earth and Planetary Sciences"=>3}, "reader_count_by_subdiscipline"=>{"Engineering"=>{"Engineering"=>4}, "Chemistry"=>{"Chemistry"=>1}, "Psychology"=>{"Psychology"=>2}, "Immunology and Microbiology"=>{"Immunology and Microbiology"=>1}, "Earth and Planetary Sciences"=>{"Earth and Planetary Sciences"=>3}, "Agricultural and Biological Sciences"=>{"Agricultural and Biological Sciences"=>76}, "Computer Science"=>{"Computer Science"=>1}, "Biochemistry, Genetics and Molecular Biology"=>{"Biochemistry, Genetics and Molecular Biology"=>26}, "Unspecified"=>{"Unspecified"=>9}, "Environmental Science"=>{"Environmental Science"=>3}, "Chemical Engineering"=>{"Chemical Engineering"=>1}}, "reader_count_by_country"=>{"Colombia"=>1, "Netherlands"=>1, "United States"=>3, "Ireland"=>2, "Denmark"=>1, "Italy"=>1, "United Kingdom"=>1, "France"=>1, "Australia"=>1, "Germany"=>1}, "group_count"=>6}

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Figshare

  • {"files"=>["https://ndownloader.figshare.com/files/1344703"], "description"=>"<p>, data cited from the genome paper of <i>N. gaditana</i> CCMP526 <a href=\"http://www.plosgenetics.org/article/info:doi/10.1371/journal.pgen.1004094#pgen.1004094-Radakovits1\" target=\"_blank\">[5]</a>.</p>", "links"=>[], "tags"=>["Evolutionary biology", "Evolutionary developmental biology", "Evolutionary genetics", "Genomic evolution", "genetics", "genomics", "Comparative genomics", "Functional genomics", "Genome evolution", "Genome sequencing", "Plant science", "Plant evolution", "Plant genetics", "Plant genomics"], "article_id"=>899003, "categories"=>["Biological Sciences"], "users"=>["Dongmei Wang", "Kang Ning", "Jing Li", "Jianqiang Hu", "Danxiang Han", "Hui Wang", "Xiaowei Zeng", "Xiaoyan Jing", "Qian Zhou", "Xiaoquan Su", "Xingzhi Chang", "Anhui Wang", "Wei Wang", "Jing Jia", "Li Wei", "Yi Xin", "Yinghe Qiao", "Ranran Huang", "Jie Chen", "Bo Han", "Kangsup Yoon", "Russell T. Hill", "Yonathan Zohar", "Feng Chen", "Qiang Hu", "Jian Xu"], "doi"=>"https://dx.doi.org/10.1371/journal.pgen.1004094.t001", "stats"=>{"downloads"=>1, "page_views"=>14, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Genomic_features_of_the_Nannochloropsis_genomes_/899003", "title"=>"Genomic features of the <i>Nannochloropsis</i> genomes.", "pos_in_sequence"=>0, "defined_type"=>3, "published_date"=>"2014-01-09 04:01:10"}
  • {"files"=>["https://ndownloader.figshare.com/files/1344702"], "description"=>"<p>(<b>A</b>) Gene doses of <i>DGAT-1</i> and <i>DGAT-2</i> in <i>Nannochloropsis</i> and several model organisms. The numbers of <i>DGAT-1</i> and <i>DGAT-2</i> genes in each genome are indicated by different colors. <i>N. oceanica</i> IMET1 is marked by red star. (<b>B</b>) Schema illustrating the divergent phylogenetic origins of <i>Nannochloropsis DGAT-2</i> from the red/green algae-related endosymbionts and potential secondary host. The protein names listed in each individual schematic cell indicate the DGAT-2 genes that were likely to be encoded in the genome. Abbreviations: N, nucleus; C, chloroplast; M, mitochondria.</p>", "links"=>[], "tags"=>["Evolutionary biology", "Evolutionary developmental biology", "Evolutionary genetics", "Genomic evolution", "genetics", "genomics", "Comparative genomics", "Functional genomics", "Genome evolution", "Genome sequencing", "Plant science", "Plant evolution", "Plant genetics", "Plant genomics", "phylogenetic", "origins"], "article_id"=>899002, "categories"=>["Biological Sciences"], "users"=>["Dongmei Wang", "Kang Ning", "Jing Li", "Jianqiang Hu", "Danxiang Han", "Hui Wang", "Xiaowei Zeng", "Xiaoyan Jing", "Qian Zhou", "Xiaoquan Su", "Xingzhi Chang", "Anhui Wang", "Wei Wang", "Jing Jia", "Li Wei", "Yi Xin", "Yinghe Qiao", "Ranran Huang", "Jie Chen", "Bo Han", "Kangsup Yoon", "Russell T. Hill", "Yonathan Zohar", "Feng Chen", "Qiang Hu", "Jian Xu"], "doi"=>"https://dx.doi.org/10.1371/journal.pgen.1004094.g005", "stats"=>{"downloads"=>4, "page_views"=>38, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Divergent_phylogenetic_origins_of_Nannochloropsis_DGAT_2_genes_/899002", "title"=>"Divergent phylogenetic origins of <i>Nannochloropsis DGAT-2</i> genes.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2014-01-09 04:01:10"}
  • {"files"=>["https://ndownloader.figshare.com/files/1344697"], "description"=>"<p>Each circle represents a paralogous group. The area of the circle is proportional to the size of the paralogous group. The top 15 largest paralogous groups in each of the six <i>Nannochloropsis</i> genomes and the other three model microalgae (including <i>T. pseudonana</i>, <i>C. merolae</i> and <i>C. reinhardtii</i>) are shown. The largest paralogous groups in the six <i>Nannochloropsis</i> genomes and the other three model microalgae, including <i>T. pseudonana</i>, <i>C. merolae</i> and <i>C. reinhardtii</i>. The color of the circle represents the functions (as defined by the associated GO Slim terms in biological process) encoded by the paralogous group. The paralogous groups in each <i>Nannochloropsis</i> strain are relatively small in size.</p>", "links"=>[], "tags"=>["Evolutionary biology", "Evolutionary developmental biology", "Evolutionary genetics", "Genomic evolution", "genetics", "genomics", "Comparative genomics", "Functional genomics", "Genome evolution", "Genome sequencing", "Plant science", "Plant evolution", "Plant genetics", "Plant genomics", "paralogous", "groups"], "article_id"=>898997, "categories"=>["Biological Sciences"], "users"=>["Dongmei Wang", "Kang Ning", "Jing Li", "Jianqiang Hu", "Danxiang Han", "Hui Wang", "Xiaowei Zeng", "Xiaoyan Jing", "Qian Zhou", "Xiaoquan Su", "Xingzhi Chang", "Anhui Wang", "Wei Wang", "Jing Jia", "Li Wei", "Yi Xin", "Yinghe Qiao", "Ranran Huang", "Jie Chen", "Bo Han", "Kangsup Yoon", "Russell T. Hill", "Yonathan Zohar", "Feng Chen", "Qiang Hu", "Jian Xu"], "doi"=>"https://dx.doi.org/10.1371/journal.pgen.1004094.g002", "stats"=>{"downloads"=>3, "page_views"=>12, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Structure_of_paralogous_groups_in_each_Nannochloropsis_strain_/898997", "title"=>"Structure of paralogous groups in each <i>Nannochloropsis</i> strain.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2014-01-09 04:01:10"}
  • {"files"=>["https://ndownloader.figshare.com/files/1344696"], "description"=>"<p>(<b>A</b>) Whole-genome based phylogeny of <i>Nannochloropsis</i>. A maximum likelihood (consensus) tree was generated using the PhyML program (JTT model) with 1,000 replicates based on the 1,085 six-way single-copy orthologous gene sets identified from the six <i>Nannochloropsis</i> genomes (<b><a href=\"http://www.plosgenetics.org/article/info:doi/10.1371/journal.pgen.1004094#pgen.1004094.s023\" target=\"_blank\">Text S1</a></b>). Percentages of replicate trees in the bootstrap test are shown next to the branches. (<b>B</b>) Genome divergence in <i>Nannochloropsis</i>. For each pair of genomes that consists of IMET1 and another <i>Nannochloropsis</i> strain, the percentages of strain-specific proteins versus their discrepancies in the full-length 18S rDNA sequence were plotted. Ten <i>S. cerevisiae</i> strains, eight <i>E. coli</i> strains, nine <i>Synechococcus</i> strains and two each of <i>Ostreococcus</i> and <i>Micromonas</i> were also included. For prokaryotic organisms including <i>E. coli</i> and <i>Synechococcus</i>, the percentages of strain-specific proteins were plotted against the discrepancies in 16S rDNA sequences. (<b>C</b>) The number of genes from the <i>Nannochloropsis</i> genomes and the <i>Nannochloropsis</i> core, with successive inclusion of each additional strain. (<b>D</b>) Functional categorization of <i>Nannochloropsis</i> core proteins. GO Slim terms corresponding to each GO term are presented.</p>", "links"=>[], "tags"=>["Evolutionary biology", "Evolutionary developmental biology", "Evolutionary genetics", "Genomic evolution", "genetics", "genomics", "Comparative genomics", "Functional genomics", "Genome evolution", "Genome sequencing", "Plant science", "Plant evolution", "Plant genetics", "Plant genomics"], "article_id"=>898996, "categories"=>["Biological Sciences"], "users"=>["Dongmei Wang", "Kang Ning", "Jing Li", "Jianqiang Hu", "Danxiang Han", "Hui Wang", "Xiaowei Zeng", "Xiaoyan Jing", "Qian Zhou", "Xiaoquan Su", "Xingzhi Chang", "Anhui Wang", "Wei Wang", "Jing Jia", "Li Wei", "Yi Xin", "Yinghe Qiao", "Ranran Huang", "Jie Chen", "Bo Han", "Kangsup Yoon", "Russell T. Hill", "Yonathan Zohar", "Feng Chen", "Qiang Hu", "Jian Xu"], "doi"=>"https://dx.doi.org/10.1371/journal.pgen.1004094.g001", "stats"=>{"downloads"=>5, "page_views"=>6, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Structural_features_of_the_six_Nannochloropsis_genomes_/898996", "title"=>"Structural features of the six <i>Nannochloropsis</i> genomes.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2014-01-09 04:01:10"}
  • {"files"=>["https://ndownloader.figshare.com/files/1344704", "https://ndownloader.figshare.com/files/1344705", "https://ndownloader.figshare.com/files/1344706", "https://ndownloader.figshare.com/files/1344707", "https://ndownloader.figshare.com/files/1344708", "https://ndownloader.figshare.com/files/1344709", "https://ndownloader.figshare.com/files/1344710", "https://ndownloader.figshare.com/files/1344711", "https://ndownloader.figshare.com/files/1344712", "https://ndownloader.figshare.com/files/1344713", "https://ndownloader.figshare.com/files/1344714", "https://ndownloader.figshare.com/files/1344715", "https://ndownloader.figshare.com/files/1344716", "https://ndownloader.figshare.com/files/1344717", "https://ndownloader.figshare.com/files/1344718", "https://ndownloader.figshare.com/files/1344719", "https://ndownloader.figshare.com/files/1344720", "https://ndownloader.figshare.com/files/1344721", "https://ndownloader.figshare.com/files/1344722", "https://ndownloader.figshare.com/files/1344723", "https://ndownloader.figshare.com/files/1344724", "https://ndownloader.figshare.com/files/1344725", "https://ndownloader.figshare.com/files/1344726", "https://ndownloader.figshare.com/files/1344727"], "description"=>"<div><p>Oleaginous microalgae are promising feedstock for biofuels, yet the genetic diversity, origin and evolution of oleaginous traits remain largely unknown. Here we present a detailed phylogenomic analysis of five oleaginous <i>Nannochloropsis</i> species (a total of six strains) and one time-series transcriptome dataset for triacylglycerol (TAG) synthesis on one representative strain. Despite small genome sizes, high coding potential and relative paucity of mobile elements, the genomes feature small cores of ca. 2,700 protein-coding genes and a large pan-genome of >38,000 genes. The six genomes share key oleaginous traits, such as the enrichment of selected lipid biosynthesis genes and certain glycoside hydrolase genes that potentially shift carbon flux from chrysolaminaran to TAG synthesis. The eleven type II diacylglycerol acyltransferase genes (<i>DGAT-2</i>) in every strain, each expressed during TAG synthesis, likely originated from three ancient genomes, including the secondary endosymbiosis host and the engulfed green and red algae. Horizontal gene transfers were inferred in most lipid synthesis nodes with expanded gene doses and many glycoside hydrolase genes. Thus multiple genome pooling and horizontal genetic exchange, together with selective inheritance of lipid synthesis genes and species-specific gene loss, have led to the enormous genetic apparatus for oleaginousness and the wide genomic divergence among present-day <i>Nannochloropsis</i>. These findings have important implications in the screening and genetic engineering of microalgae for biofuels.</p></div>", "links"=>[], "tags"=>["Evolutionary biology", "Evolutionary developmental biology", "Evolutionary genetics", "Genomic evolution", "genetics", "genomics", "Comparative genomics", "Functional genomics", "Genome evolution", "Genome sequencing", "Plant science", "Plant evolution", "Plant genetics", "Plant genomics", "genomes", "microalgal", "oleaginous"], "article_id"=>899004, "categories"=>["Biological Sciences"], "users"=>["Dongmei Wang", "Kang Ning", "Jing Li", "Jianqiang Hu", "Danxiang Han", "Hui Wang", "Xiaowei Zeng", "Xiaoyan Jing", "Qian Zhou", "Xiaoquan Su", "Xingzhi Chang", "Anhui Wang", "Wei Wang", "Jing Jia", "Li Wei", "Yi Xin", "Yinghe Qiao", "Ranran Huang", "Jie Chen", "Bo Han", "Kangsup Yoon", "Russell T. Hill", "Yonathan Zohar", "Feng Chen", "Qiang Hu", "Jian Xu"], "doi"=>["https://dx.doi.org/10.1371/journal.pgen.1004094.s001", "https://dx.doi.org/10.1371/journal.pgen.1004094.s002", "https://dx.doi.org/10.1371/journal.pgen.1004094.s003", "https://dx.doi.org/10.1371/journal.pgen.1004094.s004", "https://dx.doi.org/10.1371/journal.pgen.1004094.s005", "https://dx.doi.org/10.1371/journal.pgen.1004094.s006", "https://dx.doi.org/10.1371/journal.pgen.1004094.s007", "https://dx.doi.org/10.1371/journal.pgen.1004094.s008", "https://dx.doi.org/10.1371/journal.pgen.1004094.s009", "https://dx.doi.org/10.1371/journal.pgen.1004094.s010", "https://dx.doi.org/10.1371/journal.pgen.1004094.s011", "https://dx.doi.org/10.1371/journal.pgen.1004094.s012", "https://dx.doi.org/10.1371/journal.pgen.1004094.s013", "https://dx.doi.org/10.1371/journal.pgen.1004094.s014", "https://dx.doi.org/10.1371/journal.pgen.1004094.s015", "https://dx.doi.org/10.1371/journal.pgen.1004094.s016", "https://dx.doi.org/10.1371/journal.pgen.1004094.s017", "https://dx.doi.org/10.1371/journal.pgen.1004094.s018", "https://dx.doi.org/10.1371/journal.pgen.1004094.s019", "https://dx.doi.org/10.1371/journal.pgen.1004094.s020", "https://dx.doi.org/10.1371/journal.pgen.1004094.s021", "https://dx.doi.org/10.1371/journal.pgen.1004094.s022", "https://dx.doi.org/10.1371/journal.pgen.1004094.s023", "https://dx.doi.org/10.1371/journal.pgen.1004094.s024"], "stats"=>{"downloads"=>124, "page_views"=>32, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Nannochloropsis_Genomes_Reveal_Evolution_of_Microalgal_Oleaginous_Traits/899004", "title"=>"<i>Nannochloropsis</i> Genomes Reveal Evolution of Microalgal Oleaginous Traits", "pos_in_sequence"=>0, "defined_type"=>4, "published_date"=>"2014-01-09 04:01:10"}
  • {"files"=>["https://ndownloader.figshare.com/files/1344701"], "description"=>"<p>(<b>A</b>) The gene dose expansion in <i>N. oceanica</i> IMET1 as compared to <i>C. reinhardtii</i>. In the schema, enzymes in each reaction node in the <i>Nannochloropsis</i> and <i>C. reinhardtii</i> lipid biosynthesis pathways are represented as yellow and blue circles, respectively. Length of radius stands for gene dose. Putative HGT genes in each node in IMET1 are shown in purple. <i>Chlamydomonas</i> genes were not investigated for HGT events here. (<b>B</b>) The expansion in gene dose was conserved among the <i>Nannochloropsis</i> genomes. Each colored cell in the heatmap represents the gene copy numbers in each of the <i>Nannochloropsis</i> strains and in <i>C. reinhardtii</i>. The scale of the color bar ranges from 1 (the lowest copy number among the genomes) to 13 (the highest copy number).</p>", "links"=>[], "tags"=>["Evolutionary biology", "Evolutionary developmental biology", "Evolutionary genetics", "Genomic evolution", "genetics", "genomics", "Comparative genomics", "Functional genomics", "Genome evolution", "Genome sequencing", "Plant science", "Plant evolution", "Plant genetics", "Plant genomics", "lipid", "biosynthesis", "genes"], "article_id"=>899001, "categories"=>["Biological Sciences"], "users"=>["Dongmei Wang", "Kang Ning", "Jing Li", "Jianqiang Hu", "Danxiang Han", "Hui Wang", "Xiaowei Zeng", "Xiaoyan Jing", "Qian Zhou", "Xiaoquan Su", "Xingzhi Chang", "Anhui Wang", "Wei Wang", "Jing Jia", "Li Wei", "Yi Xin", "Yinghe Qiao", "Ranran Huang", "Jie Chen", "Bo Han", "Kangsup Yoon", "Russell T. Hill", "Yonathan Zohar", "Feng Chen", "Qiang Hu", "Jian Xu"], "doi"=>"https://dx.doi.org/10.1371/journal.pgen.1004094.g004", "stats"=>{"downloads"=>0, "page_views"=>20, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Enrichment_of_lipid_biosynthesis_genes_in_each_of_the_six_Nannochloropsis_strains_/899001", "title"=>"Enrichment of lipid biosynthesis genes in each of the six <i>Nannochloropsis</i> strains.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2014-01-09 04:01:10"}
  • {"files"=>["https://ndownloader.figshare.com/files/1344699"], "description"=>"<p>For each genome, the numbers of genes assigned to each GO term and its subcategory terms are shown. The color scheme, defined by the scale bar on the top, represents the degree of relative enrichment or depletion for each functional category as compared to <i>C. reinhardtii</i>. The <i>p</i> values of enrichment or depletion were calculated using a binomial test corrected by FDR for multiple comparisons. IMET1, <i>N. oceanica</i> IMET1; 531, <i>N. oceanica</i> CCMP531; 529, <i>N. granulata</i> CCMP529; 525, <i>N. oculata</i> CCMP525; 526, <i>N. gaditana</i> CCMP526; 537, <i>N. salina</i> CCMP537; cre, <i>C. reinhardtii</i>.</p>", "links"=>[], "tags"=>["Evolutionary biology", "Evolutionary developmental biology", "Evolutionary genetics", "Genomic evolution", "genetics", "genomics", "Comparative genomics", "Functional genomics", "Genome evolution", "Genome sequencing", "Plant science", "Plant evolution", "Plant genetics", "Plant genomics"], "article_id"=>898999, "categories"=>["Biological Sciences"], "users"=>["Dongmei Wang", "Kang Ning", "Jing Li", "Jianqiang Hu", "Danxiang Han", "Hui Wang", "Xiaowei Zeng", "Xiaoyan Jing", "Qian Zhou", "Xiaoquan Su", "Xingzhi Chang", "Anhui Wang", "Wei Wang", "Jing Jia", "Li Wei", "Yi Xin", "Yinghe Qiao", "Ranran Huang", "Jie Chen", "Bo Han", "Kangsup Yoon", "Russell T. Hill", "Yonathan Zohar", "Feng Chen", "Qiang Hu", "Jian Xu"], "doi"=>"https://dx.doi.org/10.1371/journal.pgen.1004094.g003", "stats"=>{"downloads"=>0, "page_views"=>25, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Functional_conservation_and_variation_of_the_Nannochloropsis_genomes_/898999", "title"=>"Functional conservation and variation of the <i>Nannochloropsis</i> genomes.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2014-01-09 04:01:10"}

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