The Airborne Metagenome in an Indoor Urban Environment
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{"title"=>"The airbone metagenome in an indoor urban environment", "type"=>"journal", "authors"=>[{"first_name"=>"Susannah G.", "last_name"=>"Tringe", "scopus_author_id"=>"12763594600"}, {"first_name"=>"Tao", "last_name"=>"Zhang", "scopus_author_id"=>"36892096000"}, {"first_name"=>"Xuguo", "last_name"=>"Liu", "scopus_author_id"=>"24341946200"}, {"first_name"=>"Yiting", "last_name"=>"Yu", "scopus_author_id"=>"55500690200"}, {"first_name"=>"Wah Heng", "last_name"=>"Lee", "scopus_author_id"=>"55520051200"}, {"first_name"=>"Jennifer", "last_name"=>"Yap", "scopus_author_id"=>"8563899600"}, {"first_name"=>"Fei", "last_name"=>"Yao", "scopus_author_id"=>"36921162700"}, {"first_name"=>"Sim Tiow", "last_name"=>"Suan", "scopus_author_id"=>"7005188895"}, {"first_name"=>"Seah Keng", "last_name"=>"Ing", "scopus_author_id"=>"24463347400"}, {"first_name"=>"Matthew", "last_name"=>"Haynes", "scopus_author_id"=>"14028459800"}, {"first_name"=>"Forest", "last_name"=>"Rohwer", "scopus_author_id"=>"7003939295"}, {"first_name"=>"Chia Lin", "last_name"=>"Wei", "scopus_author_id"=>"7401658175"}, {"first_name"=>"Patrick", "last_name"=>"Tan", "scopus_author_id"=>"34769387900"}, {"first_name"=>"James", "last_name"=>"Bristow", "scopus_author_id"=>"7102284465"}, {"first_name"=>"Edward M.", "last_name"=>"Rubin", "scopus_author_id"=>"7201763365"}, {"first_name"=>"Yijun", "last_name"=>"Ruan", "scopus_author_id"=>"7103091069"}], "year"=>2008, "source"=>"PLoS ONE", "identifiers"=>{"issn"=>"19326203", "arxiv"=>"Tringe, Susannah G., 2008, The airborne", "scopus"=>"2-s2.0-44849114763", "pui"=>"351954368", "doi"=>"10.1371/journal.pone.0001862", "isbn"=>"1932-6203 (Electronic)\\n1932-6203 (Linking)", "sgr"=>"44849114763", "pmid"=>"18382653"}, "id"=>"3b24fdb6-b33e-36db-82f3-e9ea37f10f5e", "abstract"=>"The indoor atmosphere is an ecological unit that impacts on public health. To investigate the composition of organisms in this space, we applied culture-independent approaches to microbes harvested from the air of two densely populated urban buildings, from which we analyzed 80 megabases genomic DNA sequence and 6000 16S rDNA clones. The air microbiota is primarily bacteria, including potential opportunistic pathogens commonly isolated from human-inhabited environments such as hospitals, but none of the data contain matches to virulent pathogens or bioterror agents. Comparison of air samples with each other and nearby environments suggested that the indoor air microbes are not random transients from surrounding outdoor environments, but rather originate from indoor niches. Sequence annotation by gene function revealed specific adaptive capabilities enriched in the air environment, including genes potentially involved in resistance to desiccation and oxidative damage. This baseline index of air microbiota will be valuable for improving designs of surveillance for natural or man-made release of virulent pathogens.", "link"=>"http://www.mendeley.com/research/airbone-metagenome-indoor-urban-environment", "reader_count"=>264, "reader_count_by_academic_status"=>{"Unspecified"=>5, "Professor > Associate Professor"=>15, "Librarian"=>3, "Researcher"=>74, "Student > Doctoral Student"=>12, "Student > Ph. D. Student"=>62, "Student > Postgraduate"=>11, "Other"=>10, "Student > Master"=>31, "Student > Bachelor"=>21, "Lecturer"=>4, "Lecturer > Senior Lecturer"=>2, "Professor"=>14}, "reader_count_by_user_role"=>{"Unspecified"=>5, "Professor > Associate Professor"=>15, "Librarian"=>3, "Researcher"=>74, "Student > Doctoral Student"=>12, "Student > Ph. D. Student"=>62, "Student > Postgraduate"=>11, "Other"=>10, "Student > Master"=>31, "Student > Bachelor"=>21, "Lecturer"=>4, "Lecturer > Senior Lecturer"=>2, "Professor"=>14}, "reader_count_by_subject_area"=>{"Unspecified"=>13, "Agricultural and Biological Sciences"=>163, "Arts and Humanities"=>2, "Business, Management and Accounting"=>1, "Chemistry"=>3, "Computer Science"=>6, "Earth and Planetary Sciences"=>6, "Economics, Econometrics and Finance"=>1, "Engineering"=>3, "Environmental Science"=>23, "Biochemistry, Genetics and Molecular Biology"=>22, "Medicine and Dentistry"=>8, "Design"=>2, "Physics and Astronomy"=>2, "Social Sciences"=>3, "Immunology and Microbiology"=>5, "Nursing and Health Professions"=>1}, "reader_count_by_subdiscipline"=>{"Medicine and Dentistry"=>{"Medicine and Dentistry"=>8}, "Social Sciences"=>{"Social Sciences"=>3}, "Physics and Astronomy"=>{"Physics and Astronomy"=>2}, "Unspecified"=>{"Unspecified"=>13}, "Environmental Science"=>{"Environmental Science"=>23}, "Arts and Humanities"=>{"Arts and Humanities"=>2}, "Design"=>{"Design"=>2}, "Engineering"=>{"Engineering"=>3}, "Chemistry"=>{"Chemistry"=>3}, "Earth and Planetary Sciences"=>{"Earth and Planetary Sciences"=>6}, "Economics, Econometrics and Finance"=>{"Economics, Econometrics and Finance"=>1}, "Immunology and Microbiology"=>{"Immunology and Microbiology"=>5}, "Agricultural and Biological Sciences"=>{"Agricultural and Biological Sciences"=>163}, "Computer Science"=>{"Computer Science"=>6}, "Business, Management and Accounting"=>{"Business, Management and Accounting"=>1}, "Nursing and Health Professions"=>{"Nursing and Health Professions"=>1}, "Biochemistry, Genetics and Molecular Biology"=>{"Biochemistry, Genetics and Molecular Biology"=>22}}, "reader_count_by_country"=>{"United States"=>15, "Japan"=>1, "United Kingdom"=>1, "Portugal"=>3, "New Zealand"=>1, "Canada"=>1, "Sweden"=>1, "Belgium"=>1, "Brazil"=>7, "Mexico"=>2, "Italy"=>1, "France"=>1, "Chile"=>1, "Germany"=>2, "Indonesia"=>1}, "group_count"=>17}

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Figshare

  • {"files"=>["https://ndownloader.figshare.com/files/460301", "https://ndownloader.figshare.com/files/460350", "https://ndownloader.figshare.com/files/460393", "https://ndownloader.figshare.com/files/460436", "https://ndownloader.figshare.com/files/460479", "https://ndownloader.figshare.com/files/460523", "https://ndownloader.figshare.com/files/460558", "https://ndownloader.figshare.com/files/460612", "https://ndownloader.figshare.com/files/460652", "https://ndownloader.figshare.com/files/460699", "https://ndownloader.figshare.com/files/460740", "https://ndownloader.figshare.com/files/460778"], "description"=>"<div><p>The indoor atmosphere is an ecological unit that impacts on public health. To investigate the composition of organisms in this space, we applied culture-independent approaches to microbes harvested from the air of two densely populated urban buildings, from which we analyzed 80 megabases genomic DNA sequence and 6000 16S rDNA clones. The air microbiota is primarily bacteria, including potential opportunistic pathogens commonly isolated from human-inhabited environments such as hospitals, but none of the data contain matches to virulent pathogens or bioterror agents. Comparison of air samples with each other and nearby environments suggested that the indoor air microbes are not random transients from surrounding outdoor environments, but rather originate from indoor niches. Sequence annotation by gene function revealed specific adaptive capabilities enriched in the air environment, including genes potentially involved in resistance to desiccation and oxidative damage. This baseline index of air microbiota will be valuable for improving designs of surveillance for natural or man-made release of virulent pathogens.</p></div>", "links"=>[], "tags"=>["airborne", "metagenome", "indoor"], "article_id"=>150709, "categories"=>["Microbiology"], "users"=>["Susannah G. Tringe", "Tao Zhang", "Xuguo Liu", "Yiting Yu", "Wah Heng Lee", "Jennifer Yap", "Fei Yao", "Sim Tiow Suan", "Seah Keng Ing", "Matthew Haynes", "Forest Rohwer", "Chia Lin Wei", "Patrick Tan", "James Bristow", "Edward M. Rubin", "Yijun Ruan"], "doi"=>["https://dx.doi.org/10.1371/journal.pone.0001862.s001", "https://dx.doi.org/10.1371/journal.pone.0001862.s002", "https://dx.doi.org/10.1371/journal.pone.0001862.s003", "https://dx.doi.org/10.1371/journal.pone.0001862.s004", "https://dx.doi.org/10.1371/journal.pone.0001862.s005", "https://dx.doi.org/10.1371/journal.pone.0001862.s006", "https://dx.doi.org/10.1371/journal.pone.0001862.s007", "https://dx.doi.org/10.1371/journal.pone.0001862.s008", "https://dx.doi.org/10.1371/journal.pone.0001862.s009", "https://dx.doi.org/10.1371/journal.pone.0001862.s010", "https://dx.doi.org/10.1371/journal.pone.0001862.s011", "https://dx.doi.org/10.1371/journal.pone.0001862.s012"], "stats"=>{"downloads"=>20, "page_views"=>10, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/The_Airborne_Metagenome_in_an_Indoor_Urban_Environment/150709", "title"=>"The Airborne Metagenome in an Indoor Urban Environment", "pos_in_sequence"=>0, "defined_type"=>4, "published_date"=>"2008-04-02 00:11:49"}
  • {"files"=>["https://ndownloader.figshare.com/files/934442"], "description"=>"<p>Predicted ORFs from the two air samples in this study and the other 3 environmental samples from previous studies were mapped to orthologous groups and broad functional categories according to the COG and STRING databases. Only functions that are more common in air than in other environments are depicted: N, Cell motility and secretion; U, Intracellular trafficking and vesicular transport; P, Inorganic ion transport and metabolism; K, Transcription; L, DNA replication, recombination and repair; G, Carbohydrate transport and metabolism; and O, Posttranslational modification.</p>", "links"=>[], "tags"=>["microbiology/applied microbiology", "microbiology/environmental microbiology", "microbiology/microbial evolution and genomics"], "article_id"=>604870, "categories"=>["Microbiology"], "users"=>["Susannah G. Tringe", "Tao Zhang", "Xuguo Liu", "Yiting Yu", "Wah Heng Lee", "Jennifer Yap", "Fei Yao", "Sim Tiow Suan", "Seah Keng Ing", "Matthew Haynes", "Forest Rohwer", "Chia Lin Wei", "Patrick Tan", "James Bristow", "Edward M. Rubin", "Yijun Ruan"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0001862.g003", "stats"=>{"downloads"=>1, "page_views"=>6, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_COG_analysis_/604870", "title"=>"COG analysis.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2008-04-02 01:21:10"}
  • {"files"=>["https://ndownloader.figshare.com/files/934574"], "description"=>"<p>Functionally associated gene clusters overrepresented in air and their relative abundance in other environments.</p>", "links"=>[], "tags"=>["clusters", "overrepresented", "abundance"], "article_id"=>605008, "categories"=>["Microbiology"], "users"=>["Susannah G. Tringe", "Tao Zhang", "Xuguo Liu", "Yiting Yu", "Wah Heng Lee", "Jennifer Yap", "Fei Yao", "Sim Tiow Suan", "Seah Keng Ing", "Matthew Haynes", "Forest Rohwer", "Chia Lin Wei", "Patrick Tan", "James Bristow", "Edward M. Rubin", "Yijun Ruan"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0001862.t002", "stats"=>{"downloads"=>0, "page_views"=>0, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Functionally_associated_gene_clusters_overrepresented_in_air_and_their_relative_abundance_in_other_environments_/605008", "title"=>"Functionally associated gene clusters overrepresented in air and their relative abundance in other environments.", "pos_in_sequence"=>0, "defined_type"=>3, "published_date"=>"2008-04-02 01:23:28"}
  • {"files"=>["https://ndownloader.figshare.com/files/934523"], "description"=>"*<p>all sequences are >1000 nucleotides</p><p>Estimated and observed phylotypes in different local environments at 97% identity</p>", "links"=>[], "tags"=>["rdna"], "article_id"=>604953, "categories"=>["Microbiology"], "users"=>["Susannah G. Tringe", "Tao Zhang", "Xuguo Liu", "Yiting Yu", "Wah Heng Lee", "Jennifer Yap", "Fei Yao", "Sim Tiow Suan", "Seah Keng Ing", "Matthew Haynes", "Forest Rohwer", "Chia Lin Wei", "Patrick Tan", "James Bristow", "Edward M. Rubin", "Yijun Ruan"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0001862.t001", "stats"=>{"downloads"=>1, "page_views"=>4, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_16S_rDNA_analysis_/604953", "title"=>"16S rDNA analysis.", "pos_in_sequence"=>0, "defined_type"=>3, "published_date"=>"2008-04-02 01:22:33"}
  • {"files"=>["https://ndownloader.figshare.com/files/934342"], "description"=>"<p>A. Rarefaction curves of observed phylotype diversity for Air-1 (pink line), Air-2 (dark blue), water (green), Soil-1 (purple), and Soil-2 (red). The similarity threshold is 97%. Inset: the estimated diversity in the 5 samples using the Chao1 richness estimator. B. Distribution of microbial divisions in each of the environmental samples; circles represent, from the inside out, Air-1, Air-2, Water, Soil-1, and Soil-2. C. Bacterial orders within the Proteobacteria for each sample. D. A Venn diagram of all phylotypes observed in the air and dust samples from location 2.</p>", "links"=>[], "tags"=>["microbiology/applied microbiology", "microbiology/environmental microbiology", "microbiology/microbial evolution and genomics"], "article_id"=>604772, "categories"=>["Microbiology"], "users"=>["Susannah G. Tringe", "Tao Zhang", "Xuguo Liu", "Yiting Yu", "Wah Heng Lee", "Jennifer Yap", "Fei Yao", "Sim Tiow Suan", "Seah Keng Ing", "Matthew Haynes", "Forest Rohwer", "Chia Lin Wei", "Patrick Tan", "James Bristow", "Edward M. Rubin", "Yijun Ruan"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0001862.g002", "stats"=>{"downloads"=>0, "page_views"=>2, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Microbial_diversity_in_air_and_other_local_environmental_samples_/604772", "title"=>"Microbial diversity in air and other local environmental samples.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2008-04-02 01:19:32"}
  • {"files"=>["https://ndownloader.figshare.com/files/934171"], "description"=>"<p>A. The Singapore map and the two sampling locations (indicated by red stars) in Singapore. B. A schematic view of the air handling unit (AHU) filtration system used in the two buildings. C. An air panel filter (60×50×2 cm<sup>3</sup>) used in this study.</p>", "links"=>[], "tags"=>["sampling"], "article_id"=>604607, "categories"=>["Microbiology"], "users"=>["Susannah G. Tringe", "Tao Zhang", "Xuguo Liu", "Yiting Yu", "Wah Heng Lee", "Jennifer Yap", "Fei Yao", "Sim Tiow Suan", "Seah Keng Ing", "Matthew Haynes", "Forest Rohwer", "Chia Lin Wei", "Patrick Tan", "James Bristow", "Edward M. Rubin", "Yijun Ruan"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0001862.g001", "stats"=>{"downloads"=>1, "page_views"=>4, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Air_sampling_location_and_device_/604607", "title"=>"Air sampling location and device.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2008-04-02 01:16:47"}

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  • {"unique-ip"=>"25", "full-text"=>"13", "pdf"=>"9", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"13", "cited-by"=>"0", "year"=>"2018", "month"=>"12"}
  • {"unique-ip"=>"23", "full-text"=>"16", "pdf"=>"8", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"13", "cited-by"=>"0", "year"=>"2018", "month"=>"11"}
  • {"unique-ip"=>"20", "full-text"=>"19", "pdf"=>"8", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"2", "cited-by"=>"0", "year"=>"2019", "month"=>"2"}
  • {"unique-ip"=>"17", "full-text"=>"9", "pdf"=>"12", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2019", "month"=>"3"}
  • {"unique-ip"=>"12", "full-text"=>"6", "pdf"=>"8", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2019", "month"=>"4"}
  • {"unique-ip"=>"38", "full-text"=>"23", "pdf"=>"9", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"2", "supp-data"=>"24", "cited-by"=>"2", "year"=>"2019", "month"=>"5"}

Relative Metric

{"start_date"=>"2008-01-01T00:00:00Z", "end_date"=>"2008-12-31T00:00:00Z", "subject_areas"=>[{"subject_area"=>"/Biology and life sciences", "average_usage"=>[324, 674, 863, 1015, 1146, 1259, 1360, 1452, 1540, 1621, 1704, 1776, 1843, 1905, 1968, 2029, 2097, 2162, 2233, 2289, 2352, 2412, 2476, 2538, 2601, 2655, 2714, 2777, 2841, 2894, 2946, 2998, 3047, 3103, 3151, 3201, 3258, 3317, 3369, 3424, 3471, 3521, 3583, 3625, 3687, 3743, 3788, 3838, 3896, 3953, 4015, 4075, 4148, 4201, 4275, 4347, 4420, 4486, 4535, 4592, 4660, 4731, 4792, 4845, 4901, 4971, 5027, 5089, 5148, 5200, 5261, 5318, 5374]}, {"subject_area"=>"/Biology and life sciences/Cell biology", "average_usage"=>[303, 628, 827, 976, 1105, 1222, 1321, 1406, 1482, 1564, 1639, 1713, 1784, 1851, 1915, 1966, 2020, 2080, 2138, 2203, 2258, 2315, 2379, 2437, 2492, 2556, 2613, 2670, 2726, 2785, 2834, 2886, 2948, 2988, 3037, 3089, 3140, 3179, 3236, 3283, 3340, 3390, 3438, 3487, 3541, 3586, 3642, 3707, 3754, 3805, 3853, 3897, 3956, 4016, 4081, 4152, 4218, 4258, 4319, 4378, 4442, 4487, 4536, 4589, 4635, 4689, 4754, 4807, 4863, 4920, 4982, 5042, 5094]}]}

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