Microbiota and Metabolome Associated with Immunoglobulin A Nephropathy (IgAN)
Publication Date
June 12, 2014
Journal
PLOS ONE
Authors
Maria De Angelis, Eustacchio Montemurno, Maria Piccolo, Lucia Vannini, et al
Volume
9
Issue
6
Pages
e99006
DOI
https://dx.plos.org/10.1371/journal.pone.0099006
Publisher URL
http://journals.plos.org/plosone/article?id=10.1371%2Fjournal.pone.0099006
PubMed
http://www.ncbi.nlm.nih.gov/pubmed/24922509
PubMed Central
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4055632
Europe PMC
http://europepmc.org/abstract/MED/24922509
Web of Science
000338701300023
Scopus
84903390339
Mendeley
http://www.mendeley.com/research/microbiota-metabolome-associated-immunoglobulin-nephropathy-igan
Events
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Mendeley | Further Information

{"title"=>"Microbiota and metabolome associated with Immunoglobulin A Nephropathy (IgAN)", "type"=>"journal", "authors"=>[{"first_name"=>"Maria", "last_name"=>"De Angelis", "scopus_author_id"=>"7102614438"}, {"first_name"=>"Eustacchio", "last_name"=>"Montemurno", "scopus_author_id"=>"22956177700"}, {"first_name"=>"Maria", "last_name"=>"Piccolo", "scopus_author_id"=>"55875113300"}, {"first_name"=>"Lucia", "last_name"=>"Vannini", "scopus_author_id"=>"6602395845"}, {"first_name"=>"Gabriella", "last_name"=>"Lauriero", "scopus_author_id"=>"56233339700"}, {"first_name"=>"Valentina", "last_name"=>"Maranzano", "scopus_author_id"=>"56233236200"}, {"first_name"=>"Giorgia", "last_name"=>"Gozzi", "scopus_author_id"=>"56066513600"}, {"first_name"=>"Diana", "last_name"=>"Serrazanetti", "scopus_author_id"=>"23989486200"}, {"first_name"=>"Giuseppe", "last_name"=>"Dalfino", "scopus_author_id"=>"26029270500"}, {"first_name"=>"Marco", "last_name"=>"Gobbetti", "scopus_author_id"=>"7005775302"}, {"first_name"=>"Loreto", "last_name"=>"Gesualdo", "scopus_author_id"=>"7006760795"}], "year"=>2014, "source"=>"PLoS ONE", "identifiers"=>{"pmid"=>"24922509", "doi"=>"10.1371/journal.pone.0099006", "sgr"=>"84903390339", "isbn"=>"1932-6203", "scopus"=>"2-s2.0-84903390339", "issn"=>"19326203", "pui"=>"373398970"}, "id"=>"fb2a36a9-d5d2-397c-be17-54dd5443e187", "abstract"=>"This study aimed at investigating the fecal microbiota, and the fecal and urinary metabolome of non progressor (NP) and progressor (P) patients with immunoglobulin A nephropathy (IgAN). Three groups of volunteers were included in the study: (i) sixteen IgAN NP patients; (ii) sixteen IgAN P patients; and (iii) sixteen healthy control (HC) subjects, without known diseases. Selective media were used to determine the main cultivable bacterial groups. Bacterial tag-encoded FLX-titanium amplicon pyrosequencing of the 16S rDNA and 16S rRNA was carried out to determine total and metabolically active bacteria, respectively. Biochrom 30 series amino acid analyzer and gas-chromatography mass spectrometry/solid-phase microextraction (GC-MS/SPME) analyses were mainly carried out for metabolomic analyses. As estimated by rarefaction, Chao and Shannon diversity index, the lowest microbial diversity was found in P patients. Firmicutes increased in the fecal samples of NP and, especially, P patients due to the higher percentages of some genera/species of Ruminococcaceae, Lachnospiraceae, Eubacteriaceae and Streptococcaeae. With a few exceptions, species of Clostridium, Enterococcus and Lactobacillus genera were found at the highest levels in HC. Bacteroidaceae, Porphyromonadaceae, Prevotellaceae and Rikenellaceae families differed among NP, P and HC subjects. Sutterellaceae and Enterobacteriaceae species were almost the highest in the fecal samples of NP and/or P patients. Compared to HC subjects, Bifidobacterium species decreased in the fecal samples of NP and P. As shown by multivariate statistical analyses, the levels of metabolites (free amino acids and organic volatile compounds) from fecal and urinary samples markedly differentiated NP and, especially, P patients.", "link"=>"http://www.mendeley.com/research/microbiota-metabolome-associated-immunoglobulin-nephropathy-igan", "reader_count"=>39, "reader_count_by_academic_status"=>{"Unspecified"=>1, "Professor > Associate Professor"=>1, "Researcher"=>16, "Student > Doctoral Student"=>2, "Student > Ph. D. Student"=>8, "Other"=>2, "Student > Master"=>1, "Student > Bachelor"=>5, "Lecturer"=>2, "Professor"=>1}, "reader_count_by_user_role"=>{"Unspecified"=>1, "Professor > Associate Professor"=>1, "Researcher"=>16, "Student > Doctoral Student"=>2, "Student > Ph. D. Student"=>8, "Other"=>2, "Student > Master"=>1, "Student > Bachelor"=>5, "Lecturer"=>2, "Professor"=>1}, "reader_count_by_subject_area"=>{"Unspecified"=>2, "Biochemistry, Genetics and Molecular Biology"=>2, "Nursing and Health Professions"=>1, "Medicine and Dentistry"=>7, "Agricultural and Biological Sciences"=>14, "Veterinary Science and Veterinary Medicine"=>1, "Chemistry"=>6, "Social Sciences"=>1, "Immunology and Microbiology"=>4, "Economics, Econometrics and Finance"=>1}, "reader_count_by_subdiscipline"=>{"Medicine and Dentistry"=>{"Medicine and Dentistry"=>7}, "Chemistry"=>{"Chemistry"=>6}, "Social Sciences"=>{"Social Sciences"=>1}, "Immunology and Microbiology"=>{"Immunology and Microbiology"=>4}, "Economics, Econometrics and Finance"=>{"Economics, Econometrics and Finance"=>1}, "Agricultural and Biological Sciences"=>{"Agricultural and Biological Sciences"=>14}, "Nursing and Health Professions"=>{"Nursing and Health Professions"=>1}, "Biochemistry, Genetics and Molecular Biology"=>{"Biochemistry, Genetics and Molecular Biology"=>2}, "Unspecified"=>{"Unspecified"=>2}, "Veterinary Science and Veterinary Medicine"=>{"Veterinary Science and Veterinary Medicine"=>1}}, "reader_count_by_country"=>{"South Korea"=>1, "Italy"=>1}, "group_count"=>4}

CrossRef

Scopus | Further Information

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Figshare

  • {"files"=>["https://ndownloader.figshare.com/files/1533136"], "description"=>"<p>Cultivable cells (log cfu/g) found in the fecal samples of immunoglobulin A nephropathy (IgAN) non progressor (NP) and progressor (P) patients, and healthy controls (HC). Data are the means of three independent experiments (<i>n</i> = 3). The top and bottom of the box represent the 75th and 25th percentile of the data, respectively. The top and bottom of the error bars represent the 5th and 95th percentile of the data, respectively. ○, Outliers data. Group student's t-test p-values were also shown.</p>", "links"=>[], "tags"=>["microbiology", "Microbial physiology", "Microbial metabolism", "Nephrology", "cultivable", "microbial"], "article_id"=>1056062, "categories"=>["Biological Sciences"], "users"=>["Maria De Angelis", "Eustacchio Montemurno", "Maria Piccolo", "Lucia Vannini", "Gabriella Lauriero", "Valentina Maranzano", "Giorgia Gozzi", "Diana Serrazanetti", "Giuseppe Dalfino", "Marco Gobbetti", "Loreto Gesualdo"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0099006.g001", "stats"=>{"downloads"=>0, "page_views"=>13, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Fecal_cultivable_bacteria_of_the_main_microbial_groups_/1056062", "title"=>"Fecal cultivable bacteria of the main microbial groups.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2014-06-12 03:27:41"}
  • {"files"=>["https://ndownloader.figshare.com/files/1533166"], "description"=>"<p>Relative proportions of predominant metabolically active bacteria (16S rRNA) showing significant (<i>P</i><0.05) differences between fecal samples of healthy controls (HC), non progressor (NP) and IgAN progressor (P).</p>a–c<p>Values within a row with different superscript letters are significantly different (<i>P</i><0.05).</p>", "links"=>[], "tags"=>["microbiology", "Microbial physiology", "Microbial metabolism", "Nephrology", "nephropathy"], "article_id"=>1056090, "categories"=>["Biological Sciences"], "users"=>["Maria De Angelis", "Eustacchio Montemurno", "Maria Piccolo", "Lucia Vannini", "Gabriella Lauriero", "Valentina Maranzano", "Giorgia Gozzi", "Diana Serrazanetti", "Giuseppe Dalfino", "Marco Gobbetti", "Loreto Gesualdo"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0099006.t003", "stats"=>{"downloads"=>0, "page_views"=>4, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Immunoglobulin_A_nephropathy_IgAN_associated_microbiome_/1056090", "title"=>"Immunoglobulin A nephropathy (IgAN) associated microbiome.", "pos_in_sequence"=>0, "defined_type"=>3, "published_date"=>"2014-06-12 03:27:41"}
  • {"files"=>["https://ndownloader.figshare.com/files/1533147"], "description"=>"<p>Bacterial phyla distribution (%) found in fecal samples of immunoglobulin A nephropathy (IgAN) non progressor (NP) and progressor (P) patients, and healthy controls (HC). The X-axis represents the proportion of phyla from total (16S rDNA) and active (16S rRNA) bacteria.</p>", "links"=>[], "tags"=>["microbiology", "Microbial physiology", "Microbial metabolism", "Nephrology", "bacterial", "phyla", "feces"], "article_id"=>1056071, "categories"=>["Biological Sciences"], "users"=>["Maria De Angelis", "Eustacchio Montemurno", "Maria Piccolo", "Lucia Vannini", "Gabriella Lauriero", "Valentina Maranzano", "Giorgia Gozzi", "Diana Serrazanetti", "Giuseppe Dalfino", "Marco Gobbetti", "Loreto Gesualdo"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0099006.g003", "stats"=>{"downloads"=>0, "page_views"=>6, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Comparison_of_total_and_active_bacterial_phyla_found_in_feces_of_subjects_/1056071", "title"=>"Comparison of total and active bacterial phyla found in feces of subjects.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2014-06-12 03:27:41"}
  • {"files"=>["https://ndownloader.figshare.com/files/1533155"], "description"=>"<p>Score plot of the three principal components (PC) after principal component analysis (PCA) of metabolically active bacterial genera (16S rRNA), which were found in the fecal samples of immunoglobulin A nephropathy (IgAN) non progressor (NP) and progressor (P) patients, and healthy controls (HC). 1–16, number of fecal samples for each group of subjects.</p>", "links"=>[], "tags"=>["microbiology", "Microbial physiology", "Microbial metabolism", "Nephrology", "bacterial", "genera", "feces"], "article_id"=>1056079, "categories"=>["Biological Sciences"], "users"=>["Maria De Angelis", "Eustacchio Montemurno", "Maria Piccolo", "Lucia Vannini", "Gabriella Lauriero", "Valentina Maranzano", "Giorgia Gozzi", "Diana Serrazanetti", "Giuseppe Dalfino", "Marco Gobbetti", "Loreto Gesualdo"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0099006.g005", "stats"=>{"downloads"=>0, "page_views"=>2, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Principal_component_analysis_PCA_of_active_bacterial_genera_found_in_feces_of_subjects_/1056079", "title"=>"Principal component analysis (PCA) of active bacterial genera found in feces of subjects.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2014-06-12 03:27:41"}
  • {"files"=>["https://ndownloader.figshare.com/files/1533151"], "description"=>"<p>Score plot of the three principal components (PC) after principal component analysis (PCA) of total bacterial genera (16S rDNA), which were found in the fecal samples of immunoglobulin A nephropathy (IgAN) non progressor (NP) and progressor (P) patients, and healthy controls (HC). 1–16, number of fecal samples for each group of subjects.</p>", "links"=>[], "tags"=>["microbiology", "Microbial physiology", "Microbial metabolism", "Nephrology", "bacterial", "genera", "feces"], "article_id"=>1056075, "categories"=>["Biological Sciences"], "users"=>["Maria De Angelis", "Eustacchio Montemurno", "Maria Piccolo", "Lucia Vannini", "Gabriella Lauriero", "Valentina Maranzano", "Giorgia Gozzi", "Diana Serrazanetti", "Giuseppe Dalfino", "Marco Gobbetti", "Loreto Gesualdo"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0099006.g004", "stats"=>{"downloads"=>0, "page_views"=>4, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Principal_component_analysis_PCA_of_total_bacterial_genera_found_in_feces_of_subjects_/1056075", "title"=>"Principal component analysis (PCA) of total bacterial genera found in feces of subjects.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2014-06-12 03:27:41"}
  • {"files"=>["https://ndownloader.figshare.com/files/1533165"], "description"=>"<p>HC, healthy controls;NP, Immunoglobulin A nephropathy (IgAN) non-progressor; P, IgAN progressor; 16S rDNA, total bacteria; 16S rRNA, metabolically active bacteria.</p>a–c<p>Values within a row with different superscript letters are significantly different (<i>P</i><0.05).</p>", "links"=>[], "tags"=>["microbiology", "Microbial physiology", "Microbial metabolism", "Nephrology"], "article_id"=>1056089, "categories"=>["Biological Sciences"], "users"=>["Maria De Angelis", "Eustacchio Montemurno", "Maria Piccolo", "Lucia Vannini", "Gabriella Lauriero", "Valentina Maranzano", "Giorgia Gozzi", "Diana Serrazanetti", "Giuseppe Dalfino", "Marco Gobbetti", "Loreto Gesualdo"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0099006.t002", "stats"=>{"downloads"=>0, "page_views"=>4, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Pyrosequencing_data_summary_/1056089", "title"=>"Pyrosequencing data summary.", "pos_in_sequence"=>0, "defined_type"=>3, "published_date"=>"2014-06-12 03:27:41"}
  • {"files"=>["https://ndownloader.figshare.com/files/1533164"], "description"=>"a–e<p>Values within a row with different superscript letters are significantly different (<i>P</i><0.05).</p>", "links"=>[], "tags"=>["microbiology", "Microbial physiology", "Microbial metabolism", "Nephrology", "studied", "controls", "immunoglobulin", "nephropathy"], "article_id"=>1056088, "categories"=>["Biological Sciences"], "users"=>["Maria De Angelis", "Eustacchio Montemurno", "Maria Piccolo", "Lucia Vannini", "Gabriella Lauriero", "Valentina Maranzano", "Giorgia Gozzi", "Diana Serrazanetti", "Giuseppe Dalfino", "Marco Gobbetti", "Loreto Gesualdo"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0099006.t001", "stats"=>{"downloads"=>0, "page_views"=>8, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Basic_characteristics_of_studied_healthy_controls_HC_and_Immunoglobulin_A_nephropathy_IgAN_patients_/1056088", "title"=>"Basic characteristics of studied healthy controls (HC) and Immunoglobulin A nephropathy (IgAN) patients.", "pos_in_sequence"=>0, "defined_type"=>3, "published_date"=>"2014-06-12 03:27:41"}
  • {"files"=>["https://ndownloader.figshare.com/files/1533145"], "description"=>"<p>Relative abundance (%) of total (16S rDNA) and metabolically active (16S rRNA) bacteria, which were found at the phylum level in the fecal samples of immunoglobulin A nephropathy (IgAN) non progressor (NP) and progressor (P) patients, and healthy controls (HC).</p>", "links"=>[], "tags"=>["microbiology", "Microbial physiology", "Microbial metabolism", "Nephrology", "feces"], "article_id"=>1056069, "categories"=>["Biological Sciences"], "users"=>["Maria De Angelis", "Eustacchio Montemurno", "Maria Piccolo", "Lucia Vannini", "Gabriella Lauriero", "Valentina Maranzano", "Giorgia Gozzi", "Diana Serrazanetti", "Giuseppe Dalfino", "Marco Gobbetti", "Loreto Gesualdo"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0099006.g002", "stats"=>{"downloads"=>0, "page_views"=>2, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Total_and_active_bacteria_found_in_feces_of_subjects_/1056069", "title"=>"Total and active bacteria found in feces of subjects.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2014-06-12 03:27:41"}
  • {"files"=>["https://ndownloader.figshare.com/files/1533162"], "description"=>"<p>Score plots of the two principal components (PC) after principal component analysis (PCA) of volatile organic metabolites of the fecal (A) and urine (B) samples of immunoglobulin A nephropathy (IgAN) non progressor (NP) and progressor (P) patients, and healthy controls (HC).</p>", "links"=>[], "tags"=>["microbiology", "Microbial physiology", "Microbial metabolism", "Nephrology", "volatile", "metabolites", "feces"], "article_id"=>1056086, "categories"=>["Biological Sciences"], "users"=>["Maria De Angelis", "Eustacchio Montemurno", "Maria Piccolo", "Lucia Vannini", "Gabriella Lauriero", "Valentina Maranzano", "Giorgia Gozzi", "Diana Serrazanetti", "Giuseppe Dalfino", "Marco Gobbetti", "Loreto Gesualdo"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0099006.g007", "stats"=>{"downloads"=>0, "page_views"=>6, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Principal_component_analysis_PCA_of_volatile_organic_metabolites_found_in_feces_of_subjects_/1056086", "title"=>"Principal component analysis (PCA) of volatile organic metabolites found in feces of subjects.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2014-06-12 03:27:41"}
  • {"files"=>["https://ndownloader.figshare.com/files/1533159"], "description"=>"<p>Concentration (mg/kg) of individual free amino acids (FAA) found in the fecal samples of immunoglobulin A nephropathy (IgAN) non progressor (NP) and progressor (P) patients, and healthy controls (HC). Data are the means of three independent experiments and standard deviations, performed in duplicate (<i>n</i> = 6).</p>", "links"=>[], "tags"=>["microbiology", "Microbial physiology", "Microbial metabolism", "Nephrology", "amino", "acids"], "article_id"=>1056083, "categories"=>["Biological Sciences"], "users"=>["Maria De Angelis", "Eustacchio Montemurno", "Maria Piccolo", "Lucia Vannini", "Gabriella Lauriero", "Valentina Maranzano", "Giorgia Gozzi", "Diana Serrazanetti", "Giuseppe Dalfino", "Marco Gobbetti", "Loreto Gesualdo"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0099006.g006", "stats"=>{"downloads"=>0, "page_views"=>6, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Fecal_levels_of_free_amino_acids_FAA_in_subjects_/1056083", "title"=>"Fecal levels of free amino acids (FAA) in subjects.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2014-06-12 03:27:41"}
  • {"files"=>["https://ndownloader.figshare.com/files/1533173", "https://ndownloader.figshare.com/files/1533174", "https://ndownloader.figshare.com/files/1533175"], "description"=>"<div><p>This study aimed at investigating the fecal microbiota, and the fecal and urinary metabolome of non progressor (NP) and progressor (P) patients with immunoglobulin A nephropathy (IgAN). Three groups of volunteers were included in the study: (i) sixteen IgAN NP patients; (ii) sixteen IgAN P patients; and (iii) sixteen healthy control (HC) subjects, without known diseases. Selective media were used to determine the main cultivable bacterial groups. Bacterial tag-encoded FLX-titanium amplicon pyrosequencing of the 16S rDNA and 16S rRNA was carried out to determine total and metabolically active bacteria, respectively. Biochrom 30 series amino acid analyzer and gas-chromatography mass spectrometry/solid-phase microextraction (GC-MS/SPME) analyses were mainly carried out for metabolomic analyses. As estimated by rarefaction, Chao and Shannon diversity index, the lowest microbial diversity was found in P patients. Firmicutes increased in the fecal samples of NP and, especially, P patients due to the higher percentages of some genera/species of Ruminococcaceae, Lachnospiraceae, Eubacteriaceae and Streptococcaeae. With a few exceptions, species of <i>Clostridium, Enterococcus</i> and <i>Lactobacillus</i> genera were found at the highest levels in HC. Bacteroidaceae, Porphyromonadaceae, Prevotellaceae and Rikenellaceae families differed among NP, P and HC subjects. Sutterellaceae and Enterobacteriaceae species were almost the highest in the fecal samples of NP and/or P patients. Compared to HC subjects, <i>Bifidobacterium</i> species decreased in the fecal samples of NP and P. As shown by multivariate statistical analyses, the levels of metabolites (free amino acids and organic volatile compounds) from fecal and urinary samples markedly differentiated NP and, especially, P patients.</p></div>", "links"=>[], "tags"=>["microbiology", "Microbial physiology", "Microbial metabolism", "Nephrology", "metabolome", "immunoglobulin", "nephropathy"], "article_id"=>1056097, "categories"=>["Biological Sciences"], "users"=>["Maria De Angelis", "Eustacchio Montemurno", "Maria Piccolo", "Lucia Vannini", "Gabriella Lauriero", "Valentina Maranzano", "Giorgia Gozzi", "Diana Serrazanetti", "Giuseppe Dalfino", "Marco Gobbetti", "Loreto Gesualdo"], "doi"=>["https://dx.doi.org/10.1371/journal.pone.0099006.s001", "https://dx.doi.org/10.1371/journal.pone.0099006.s002", "https://dx.doi.org/10.1371/journal.pone.0099006.s003"], "stats"=>{"downloads"=>0, "page_views"=>8, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Microbiota_and_Metabolome_Associated_with_Immunoglobulin_A_Nephropathy_IgAN_/1056097", "title"=>"Microbiota and Metabolome Associated with Immunoglobulin A Nephropathy (IgAN)", "pos_in_sequence"=>0, "defined_type"=>4, "published_date"=>"2014-06-12 03:27:41"}

PMC Usage Stats | Further Information

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