Comparative and Joint Analysis of Two Metagenomic Datasets from a Biogas Fermenter Obtained by 454-Pyrosequencing
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{"title"=>"Comparative and joint analysis of two metagenomic datasets from a biogas fermenter obtained by 454-pyrosequencing", "type"=>"journal", "authors"=>[{"first_name"=>"Sebastian", "last_name"=>"Jaenicke", "scopus_author_id"=>"35067970900"}, {"first_name"=>"Christina", "last_name"=>"Ander", "scopus_author_id"=>"37121491100"}, {"first_name"=>"Thomas", "last_name"=>"Bekel", "scopus_author_id"=>"6506030161"}, {"first_name"=>"Regina", "last_name"=>"Bisdorf", "scopus_author_id"=>"37121572300"}, {"first_name"=>"Marcus", "last_name"=>"Dröge", "scopus_author_id"=>"7003710512"}, {"first_name"=>"Karl Heinz", "last_name"=>"Gartemann", "scopus_author_id"=>"6508022462"}, {"first_name"=>"Sebastian", "last_name"=>"Jünemann", "scopus_author_id"=>"26321076900"}, {"first_name"=>"Olaf", "last_name"=>"Kaiser", "scopus_author_id"=>"6601940112"}, {"first_name"=>"Lutz", "last_name"=>"Krause", "scopus_author_id"=>"7005802172"}, {"first_name"=>"Felix", "last_name"=>"Tille", "scopus_author_id"=>"12794661700"}, {"first_name"=>"Martha", "last_name"=>"Zakrzewski", "scopus_author_id"=>"26027368300"}, {"first_name"=>"Alfred", "last_name"=>"Pühler", "scopus_author_id"=>"35508153300"}, {"first_name"=>"Andreas", "last_name"=>"Schlüter", "scopus_author_id"=>"7006811077"}, {"first_name"=>"Alexander", "last_name"=>"Goesmann", "scopus_author_id"=>"6602252377"}], "year"=>2011, "source"=>"PLoS ONE", "identifiers"=>{"scopus"=>"2-s2.0-79251506683", "issn"=>"19326203", "pmid"=>"21297863", "pui"=>"361174332", "isbn"=>"1932-6203 (Electronic)\\r1932-6203 (Linking)", "sgr"=>"79251506683", "doi"=>"10.1371/journal.pone.0014519"}, "id"=>"a1e540da-61c5-36ed-972b-29b63882aec8", "abstract"=>"Biogas production from renewable resources is attracting increased attention as an alternative energy source due to the limited availability of traditional fossil fuels. Many countries are promoting the use of alternative energy sources for sustainable energy production. In this study, a metagenome from a production-scale biogas fermenter was analysed employing Roche's GS FLX Titanium technology and compared to a previous dataset obtained from the same community DNA sample that was sequenced on the GS FLX platform. Taxonomic profiling based on 16S rRNA-specific sequences and an Environmental Gene Tag (EGT) analysis employing CARMA demonstrated that both approaches benefit from the longer read lengths obtained on the Titanium platform. Results confirmed Clostridia as the most prevalent taxonomic class, whereas species of the order Methanomicrobiales are dominant among methanogenic Archaea. However, the analyses also identified additional taxa that were missed by the previous study, including members of the genera Streptococcus, Acetivibrio, Garciella, Tissierella, and Gelria, which might also play a role in the fermentation process leading to the formation of methane. Taking advantage of the CARMA feature to correlate taxonomic information of sequences with their assigned functions, it appeared that Firmicutes, followed by Bacteroidetes and Proteobacteria, dominate within the functional context of polysaccharide degradation whereas Methanomicrobiales represent the most abundant taxonomic group responsible for methane production. Clostridia is the most important class involved in the reductive CoA pathway (Wood-Ljungdahl pathway) that is characteristic for acetogenesis. Based on binning of 16S rRNA-specific sequences allocated to the dominant genus Methanoculleus, it could be shown that this genus is represented by several different species. Phylogenetic analysis of these sequences placed them in close proximity to the hydrogenotrophic methanogen Methanoculleus bourgensis. While rarefaction analyses still indicate incomplete coverage, examination of the GS FLX Titanium dataset resulted in the identification of additional genera and functional elements, providing a far more complete coverage of the community involved in anaerobic fermentative pathways leading to methane formation.", "link"=>"http://www.mendeley.com/research/comparative-joint-analysis-two-metagenomic-datasets-biogas-fermenter-obtained-454pyrosequencing", "reader_count"=>201, "reader_count_by_academic_status"=>{"Professor > Associate Professor"=>11, "Researcher"=>56, "Student > Doctoral Student"=>13, "Student > Ph. D. 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Student"=>59, "Student > Postgraduate"=>4, "Other"=>7, "Student > Master"=>27, "Student > Bachelor"=>9, "Lecturer"=>2, "Lecturer > Senior Lecturer"=>2, "Professor"=>10, "Unspecified"=>1}, "reader_count_by_subject_area"=>{"Agricultural and Biological Sciences"=>124, "Arts and Humanities"=>1, "Business, Management and Accounting"=>1, "Chemistry"=>2, "Computer Science"=>8, "Earth and Planetary Sciences"=>4, "Economics, Econometrics and Finance"=>1, "Energy"=>2, "Engineering"=>9, "Environmental Science"=>36, "Biochemistry, Genetics and Molecular Biology"=>8, "Medicine and Dentistry"=>1, "Physics and Astronomy"=>1, "Social Sciences"=>1, "Linguistics"=>1, "Unspecified"=>1}, "reader_count_by_subdiscipline"=>{"Medicine and Dentistry"=>{"Medicine and Dentistry"=>1}, "Social Sciences"=>{"Social Sciences"=>1}, "Physics and Astronomy"=>{"Physics and Astronomy"=>1}, "Environmental Science"=>{"Environmental Science"=>36}, "Unspecified"=>{"Unspecified"=>1}, "Arts and Humanities"=>{"Arts and Humanities"=>1}, "Engineering"=>{"Engineering"=>9}, "Chemistry"=>{"Chemistry"=>2}, "Energy"=>{"Energy"=>2}, "Earth and Planetary Sciences"=>{"Earth and Planetary Sciences"=>4}, "Economics, Econometrics and Finance"=>{"Economics, Econometrics and Finance"=>1}, "Agricultural and Biological Sciences"=>{"Agricultural and Biological Sciences"=>124}, "Computer Science"=>{"Computer Science"=>8}, "Business, Management and Accounting"=>{"Business, Management and Accounting"=>1}, "Linguistics"=>{"Linguistics"=>1}, "Biochemistry, Genetics and Molecular Biology"=>{"Biochemistry, Genetics and Molecular Biology"=>8}}, "reader_count_by_country"=>{"United States"=>2, "United Kingdom"=>2, "Switzerland"=>1, "India"=>2, "New Zealand"=>1, "Sweden"=>2, "Brazil"=>5, "Poland"=>1, "Mexico"=>2, "Slovenia"=>2, "France"=>3, "Germany"=>1, "Estonia"=>1}, "group_count"=>15}

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  • {"files"=>["https://ndownloader.figshare.com/files/803707"], "description"=>"<p>Overview of sequence data obtained from the studied biogas fermenter employing different pyrosequencing technologies.</p>", "links"=>[], "tags"=>["computational biology/comparative sequence analysis", "computational biology/metagenomics", "ecology/community ecology and biodiversity"], "article_id"=>474064, "categories"=>["Medicine", "Biological Sciences", "Ecology"], "users"=>["Sebastian Jaenicke", "Christina Ander", "Thomas Bekel", "Regina Bisdorf", "Marcus Dröge", "Karl-Heinz Gartemann", "Sebastian Jünemann", "Olaf Kaiser", "Lutz Krause", "Felix Tille", "Martha Zakrzewski", "Alfred Pühler", "Andreas Schlüter", "Alexander Goesmann"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0014519.t001", "stats"=>{"downloads"=>4, "page_views"=>13, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Sequencing_results_/474064", "title"=>"Sequencing results.", "pos_in_sequence"=>0, "defined_type"=>3, "published_date"=>"2011-01-26 01:07:44"}
  • {"files"=>["https://ndownloader.figshare.com/files/803535"], "description"=>"<p>The rarefaction curves represent the estimated number of genera that would be observed in biogas fermenter metagenomes of different sizes. The values were determined based on 16S rRNA fragments classified at rank genus identified in the entire Titanium and GS FLX datasets, respectively.</p>", "links"=>[], "tags"=>["observed"], "article_id"=>473891, "categories"=>["Medicine", "Biological Sciences", "Ecology"], "users"=>["Sebastian Jaenicke", "Christina Ander", "Thomas Bekel", "Regina Bisdorf", "Marcus Dröge", "Karl-Heinz Gartemann", "Sebastian Jünemann", "Olaf Kaiser", "Lutz Krause", "Felix Tille", "Martha Zakrzewski", "Alfred Pühler", "Andreas Schlüter", "Alexander Goesmann"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0014519.g007", "stats"=>{"downloads"=>1, "page_views"=>5, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Rarefaction_analysis_of_observed_genera_/473891", "title"=>"Rarefaction analysis of observed genera.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2011-01-26 01:04:51"}
  • {"files"=>["https://ndownloader.figshare.com/files/803597"], "description"=>"<p>The estimated number of Pfam protein families that would be identified in biogas fermenter metagenomes of different sizes is shown. The values were computed based on the number of protein families identified in the entire Titanium and FLX metagenomes, respectively.</p>", "links"=>[], "tags"=>["pfam"], "article_id"=>473956, "categories"=>["Medicine", "Biological Sciences", "Ecology"], "users"=>["Sebastian Jaenicke", "Christina Ander", "Thomas Bekel", "Regina Bisdorf", "Marcus Dröge", "Karl-Heinz Gartemann", "Sebastian Jünemann", "Olaf Kaiser", "Lutz Krause", "Felix Tille", "Martha Zakrzewski", "Alfred Pühler", "Andreas Schlüter", "Alexander Goesmann"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0014519.g008", "stats"=>{"downloads"=>1, "page_views"=>5, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Rarefaction_analysis_of_Pfam_families_/473956", "title"=>"Rarefaction analysis of Pfam families.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2011-01-26 01:05:56"}
  • {"files"=>["https://ndownloader.figshare.com/files/401225"], "description"=>"<div><p>Biogas production from renewable resources is attracting increased attention as an alternative energy source due to the limited availability of traditional fossil fuels. Many countries are promoting the use of alternative energy sources for sustainable energy production. In this study, a metagenome from a production-scale biogas fermenter was analysed employing Roche's GS FLX Titanium technology and compared to a previous dataset obtained from the same community DNA sample that was sequenced on the GS FLX platform. Taxonomic profiling based on 16S rRNA-specific sequences and an Environmental Gene Tag (EGT) analysis employing CARMA demonstrated that both approaches benefit from the longer read lengths obtained on the Titanium platform. Results confirmed <em>Clostridia</em> as the most prevalent taxonomic class, whereas species of the order <em>Methanomicrobiales</em> are dominant among methanogenic <em>Archaea</em>. However, the analyses also identified additional taxa that were missed by the previous study, including members of the genera <em>Streptococcus</em>, <em>Acetivibrio</em>, <em>Garciella</em>, <em>Tissierella</em>, and <em>Gelria</em>, which might also play a role in the fermentation process leading to the formation of methane. Taking advantage of the CARMA feature to correlate taxonomic information of sequences with their assigned functions, it appeared that <em>Firmicutes</em>, followed by <em>Bacteroidetes</em> and <em>Proteobacteria</em>, dominate within the functional context of polysaccharide degradation whereas <em>Methanomicrobiales</em> represent the most abundant taxonomic group responsible for methane production. <em>Clostridia</em> is the most important class involved in the reductive CoA pathway (Wood-Ljungdahl pathway) that is characteristic for acetogenesis. Based on binning of 16S rRNA-specific sequences allocated to the dominant genus <em>Methanoculleus</em>, it could be shown that this genus is represented by several different species. Phylogenetic analysis of these sequences placed them in close proximity to the hydrogenotrophic methanogen <em>Methanoculleus bourgensis</em>. While rarefaction analyses still indicate incomplete coverage, examination of the GS FLX Titanium dataset resulted in the identification of additional genera and functional elements, providing a far more complete coverage of the community involved in anaerobic fermentative pathways leading to methane formation.</p></div>", "links"=>[], "tags"=>["comparative", "metagenomic", "datasets", "biogas", "fermenter", "obtained", "454-pyrosequencing"], "article_id"=>139270, "categories"=>["Medicine", "Biological Sciences", "Ecology"], "users"=>["Sebastian Jaenicke", "Christina Ander", "Thomas Bekel", "Regina Bisdorf", "Marcus Dröge", "Karl-Heinz Gartemann", "Sebastian Jünemann", "Olaf Kaiser", "Lutz Krause", "Felix Tille", "Martha Zakrzewski", "Alfred Pühler", "Andreas Schlüter", "Alexander Goesmann"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0014519", "stats"=>{"downloads"=>2, "page_views"=>12, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/Comparative_and_Joint_Analysis_of_Two_Metagenomic_Datasets_from_a_Biogas_Fermenter_Obtained_by_454_Pyrosequencing/139270", "title"=>"Comparative and Joint Analysis of Two Metagenomic Datasets from a Biogas Fermenter Obtained by 454-Pyrosequencing", "pos_in_sequence"=>0, "defined_type"=>3, "published_date"=>"2011-01-26 02:34:30"}
  • {"files"=>["https://ndownloader.figshare.com/files/803286"], "description"=>"<p>The trees are based on reads classified into the NCBI taxonomy by the CARMA software. For each taxonomic group the underlying number of reads is given. Numbers in brackets refer to the amount of reads which could not be classified at corresponding lower taxonomic ranks. Associated COG entries are depicted as pie charts, where the interpretation of the numbers is equivalent.</p>", "links"=>[], "tags"=>["physiological", "overview", "members"], "article_id"=>473640, "categories"=>["Medicine", "Biological Sciences", "Ecology"], "users"=>["Sebastian Jaenicke", "Christina Ander", "Thomas Bekel", "Regina Bisdorf", "Marcus Dröge", "Karl-Heinz Gartemann", "Sebastian Jünemann", "Olaf Kaiser", "Lutz Krause", "Felix Tille", "Martha Zakrzewski", "Alfred Pühler", "Andreas Schlüter", "Alexander Goesmann"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0014519.g004", "stats"=>{"downloads"=>0, "page_views"=>6, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Taxonomic_and_physiological_overview_of_relevant_members_in_8216_polysaccharide_degradation_8217_a_and_8216_acetogenesis_methanogenesis_8217_b_/473640", "title"=>"Taxonomic and physiological overview of relevant members in ‘polysaccharide degradation’ (a) and ‘acetogenesis/methanogenesis’ (b).", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2011-01-26 01:00:40"}
  • {"files"=>["https://ndownloader.figshare.com/files/802935"], "description"=>"<p>A sharp decline in GC content can be seen once the read length exceeds a certain value. The vertical bars indicate the computed filtering thresholds for the GS FLX and the Titanium dataset, respectively.</p>", "links"=>[], "tags"=>["gc", "pyrosequencing"], "article_id"=>473296, "categories"=>["Medicine", "Biological Sciences", "Ecology"], "users"=>["Sebastian Jaenicke", "Christina Ander", "Thomas Bekel", "Regina Bisdorf", "Marcus Dröge", "Karl-Heinz Gartemann", "Sebastian Jünemann", "Olaf Kaiser", "Lutz Krause", "Felix Tille", "Martha Zakrzewski", "Alfred Pühler", "Andreas Schlüter", "Alexander Goesmann"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0014519.g001", "stats"=>{"downloads"=>0, "page_views"=>0, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Read_length_and_average_GC_content_of_pyrosequencing_reads_/473296", "title"=>"Read length and average GC content of pyrosequencing reads.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2011-01-26 00:54:56"}
  • {"files"=>["https://ndownloader.figshare.com/files/803169"], "description"=>"<p>The taxonomic profiles for the GS FLX (black bars) and the Titanium (lightgray bars) datasets were computed employing the CARMA pipeline. The percentage values correspond to the total amount of reads in the filtered datasets; included are the ten most abundant genera.</p>", "links"=>[], "tags"=>["taxonomic", "profiles"], "article_id"=>473523, "categories"=>["Medicine", "Biological Sciences", "Ecology"], "users"=>["Sebastian Jaenicke", "Christina Ander", "Thomas Bekel", "Regina Bisdorf", "Marcus Dröge", "Karl-Heinz Gartemann", "Sebastian Jünemann", "Olaf Kaiser", "Lutz Krause", "Felix Tille", "Martha Zakrzewski", "Alfred Pühler", "Andreas Schlüter", "Alexander Goesmann"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0014519.g003", "stats"=>{"downloads"=>1, "page_views"=>4, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Comparison_of_taxonomic_profiles_on_rank_genus_/473523", "title"=>"Comparison of taxonomic profiles on rank genus.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2011-01-26 00:58:43"}
  • {"files"=>["https://ndownloader.figshare.com/files/803375"], "description"=>"<p>Partial view (A) of pyrosequencing reads aligned to the 16S rRNA sequence of <i>Methanoculleus bourgensis</i> (Genbank accession AY196674). Colored bases indicate differences between reads and the reference (shown in the bottom line). In the depicted part, two of the seven different variants are visible. To characterize the variants, a phylogenetic tree (B) was constructed together with various reference sequences. Most variants show close relationship to <i>M. bourgensis</i>; only variant VAR2 was placed in another branch formed by <i>M. marisnigri</i>, <i>M. palmolei</i>, <i>M. chikugoensis</i> and <i>M. thermophilus</i>. Several 16S rRNA sequences from the genus <i>Methanoculleus</i> were used: <i>M. olentangyi</i> (AF095270), <i>M. bourgensis</i> (AY196674), <i>M. palmaeoli</i> (Y16382), <i>M. thermophilus</i> (AB065297), <i>M. chikugoensis</i> MG62 (AB038795) and <i>M. marisnigri</i> JR1 (CP000562 (Memar_R0043)). Additional sequences in increasing taxonomic distance were included as outgroups: <i>Methanosarcina mazeii</i> (MMU20151), <i>Methanococcus vannielii</i> SB (CP000742 (Mevan_R0025)), <i>Clavibacter michiganensis ssp. michiganensis</i> NCPPB 382 (AM711867 (CMM_RNA_0001)) and two sequences from <i>Escherichia coli</i> K12 DH10B (NC_010473 (ECDH10B_3945 and ECDH10B_2759)).</p>", "links"=>[], "tags"=>["computational biology/comparative sequence analysis", "computational biology/metagenomics", "ecology/community ecology and biodiversity"], "article_id"=>473731, "categories"=>["Medicine", "Biological Sciences", "Ecology"], "users"=>["Sebastian Jaenicke", "Christina Ander", "Thomas Bekel", "Regina Bisdorf", "Marcus Dröge", "Karl-Heinz Gartemann", "Sebastian Jünemann", "Olaf Kaiser", "Lutz Krause", "Felix Tille", "Martha Zakrzewski", "Alfred Pühler", "Andreas Schlüter", "Alexander Goesmann"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0014519.g005", "stats"=>{"downloads"=>0, "page_views"=>6, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Identification_of_Methanoculleus_variants_/473731", "title"=>"Identification of <i>Methanoculleus</i> variants.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2011-01-26 01:02:11"}
  • {"files"=>["https://ndownloader.figshare.com/files/803016"], "description"=>"<p>Displayed are only the most abundant taxa among <i>Bacteria</i> and <i>Archaea</i> lineages at various taxonomic ranks. For each group, the first number represents the number of assigned EGTs from the GS FLX dataset, the second number the EGTs from the Titanium dataset, respectively. Due to the different number of reads obtained from each sequencing platform, the amount of EGTs listed for the Titanium dataset is typically the fourfold of the number listed for the GS FLX dataset.</p>", "links"=>[], "tags"=>["gs", "flx", "titanium", "datasets", "taxonomic", "classification", "tags"], "article_id"=>473364, "categories"=>["Medicine", "Biological Sciences", "Ecology"], "users"=>["Sebastian Jaenicke", "Christina Ander", "Thomas Bekel", "Regina Bisdorf", "Marcus Dröge", "Karl-Heinz Gartemann", "Sebastian Jünemann", "Olaf Kaiser", "Lutz Krause", "Felix Tille", "Martha Zakrzewski", "Alfred Pühler", "Andreas Schlüter", "Alexander Goesmann"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0014519.g002", "stats"=>{"downloads"=>0, "page_views"=>2, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Characterization_of_the_GS_FLX_and_Titanium_datasets_based_on_the_taxonomic_classification_of_Environmental_Gene_Tags_EGTs_/473364", "title"=>"Characterization of the GS FLX and Titanium datasets based on the taxonomic classification of Environmental Gene Tags (EGTs).", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2011-01-26 00:56:04"}
  • {"files"=>["https://ndownloader.figshare.com/files/803469"], "description"=>"<p>The figure shows the mapped bases per position in the genome separated into different groups: genes that have potentially been acquired by horizontal gene transfer (HGT, depicted as dot-dashed line) and all other genes without a prediction for horizontal gene transfer (CDS, shown as dashed line). For comparison, the density function for all genes combined is shown as well (solid line). Poor coverage of HGT genes hints at genomic features probably missing in the <i>Methanoculleus</i> species present in the studied biogas fermenter, further supporting their difference to <i>Methanoculleus marisnigri</i> JR1.</p>", "links"=>[], "tags"=>["kernel", "estimates", "metagenome", "reads", "mapped", "coding", "regions", "jr1"], "article_id"=>473818, "categories"=>["Medicine", "Biological Sciences", "Ecology"], "users"=>["Sebastian Jaenicke", "Christina Ander", "Thomas Bekel", "Regina Bisdorf", "Marcus Dröge", "Karl-Heinz Gartemann", "Sebastian Jünemann", "Olaf Kaiser", "Lutz Krause", "Felix Tille", "Martha Zakrzewski", "Alfred Pühler", "Andreas Schlüter", "Alexander Goesmann"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0014519.g006", "stats"=>{"downloads"=>1, "page_views"=>7, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Comparison_of_kernel_density_estimates_for_metagenome_reads_mapped_to_coding_regions_of_the_Methanoculleus_marisnigri_JR1_genome_/473818", "title"=>"Comparison of kernel density estimates for metagenome reads mapped to coding regions of the <i>Methanoculleus marisnigri</i> JR1 genome.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2011-01-26 01:03:38"}
  • {"files"=>["https://ndownloader.figshare.com/files/803661"], "description"=>"a<p>number of reads assigned to a specific <i>M. marisnigri</i> JR1 locus (Memar);</p>b<p>Ech operon encoding a membrane-bound hydrogenase <a href=\"http://www.plosone.org/article/info:doi/10.1371/journal.pone.0014519#pone.0014519-Anderson1\" target=\"_blank\">[51]</a>;</p>c<p>F<sub>420</sub> non-reducing hydrogenase; d Eha operon encoding a membrane-bound hydrogenase <a href=\"http://www.plosone.org/article/info:doi/10.1371/journal.pone.0014519#pone.0014519-Anderson1\" target=\"_blank\">[51]</a>.</p>", "links"=>[], "tags"=>["reads", "comprising", "hydrogenase"], "article_id"=>474019, "categories"=>["Medicine", "Biological Sciences", "Ecology"], "users"=>["Sebastian Jaenicke", "Christina Ander", "Thomas Bekel", "Regina Bisdorf", "Marcus Dröge", "Karl-Heinz Gartemann", "Sebastian Jünemann", "Olaf Kaiser", "Lutz Krause", "Felix Tille", "Martha Zakrzewski", "Alfred Pühler", "Andreas Schlüter", "Alexander Goesmann"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0014519.t002", "stats"=>{"downloads"=>0, "page_views"=>1, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Metagenome_reads_comprising_hydrogenase_gene_fragments_/474019", "title"=>"Metagenome reads comprising hydrogenase gene fragments.", "pos_in_sequence"=>0, "defined_type"=>3, "published_date"=>"2011-01-26 01:06:59"}

PMC Usage Stats | Further Information

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  • {"unique-ip"=>"15", "full-text"=>"18", "pdf"=>"1", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2020", "month"=>"5"}
  • {"unique-ip"=>"11", "full-text"=>"16", "pdf"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2020", "month"=>"6"}
  • {"unique-ip"=>"11", "full-text"=>"12", "pdf"=>"2", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2020", "month"=>"7"}
  • {"unique-ip"=>"10", "full-text"=>"13", "pdf"=>"3", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"1", "cited-by"=>"0", "year"=>"2020", "month"=>"8"}
  • {"unique-ip"=>"10", "full-text"=>"15", "pdf"=>"2", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"2", "cited-by"=>"0", "year"=>"2020", "month"=>"9"}

Relative Metric

{"start_date"=>"2011-01-01T00:00:00Z", "end_date"=>"2011-12-31T00:00:00Z", "subject_areas"=>[{"subject_area"=>"/Biology and life sciences", "average_usage"=>[304, 568, 702, 818, 927, 1027, 1118, 1206, 1285, 1357, 1427, 1500, 1564, 1636, 1705, 1773, 1840, 1909, 1974, 2039, 2106, 2170, 2234, 2296, 2358, 2423, 2484, 2546, 2606, 2673, 2734, 2795, 2857, 2921, 2984, 3046, 3100]}, {"subject_area"=>"/Biology and life sciences/Molecular biology", "average_usage"=>[295, 553, 688, 802, 914, 1017, 1108, 1194, 1278, 1351, 1419, 1500, 1570, 1633, 1712, 1774, 1839, 1903, 1970, 2033, 2101, 2162, 2228, 2291, 2352, 2418, 2486, 2547, 2610, 2680, 2737, 2799, 2859, 2919, 2974, 3029, 3082]}, {"subject_area"=>"/Engineering and technology", "average_usage"=>[312, 536, 658, 770, 877, 959, 1047, 1128, 1203, 1267, 1324, 1404, 1481, 1548, 1609, 1671, 1739, 1802, 1854, 1915, 1974, 2027, 2101, 2161, 2218, 2280, 2340, 2406, 2457, 2507, 2565, 2631, 2682, 2749, 2796, 2844, 2892]}]}
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