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Evaluation of Bacte...
Evaluation of Bacteria and Fungi DNA Abundance in Human Tissues
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- de Albuquerque, Gabriela E. (author)
- AC Camargo Canc Ctr, Lab Med Genom, BR-01508010 Sao Paulo, SP, Brazil.
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- Moda, Bruno S. (author)
- AC Camargo Canc Ctr, Lab Computat Biol & Bioinformat, BR-01508010 Sao Paulo, SP, Brazil.
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- Serpa, Marianna S. (author)
- AC Camargo Canc Ctr, Lab Med Genom, BR-01508010 Sao Paulo, SP, Brazil.
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- Branco, Gabriela P. (author)
- AC Camargo Canc Ctr, Lab Med Genom, BR-01508010 Sao Paulo, SP, Brazil.
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- Defelicibus, Alexandre (author)
- AC Camargo Canc Ctr, Lab Computat Biol & Bioinformat, BR-01508010 Sao Paulo, SP, Brazil.
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- Takenaka, Isabella K. T. M. (author)
- AC Camargo Canc Ctr, Lab Med Genom, BR-01508010 Sao Paulo, SP, Brazil.
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- de Amorim, Maria G. (author)
- AC Camargo Canc Ctr, Lab Med Genom, BR-01508010 Sao Paulo, SP, Brazil.
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- Miola, Elizabeth C. (author)
- AC Camargo Canc Ctr, Lab Med Genom, BR-01508010 Sao Paulo, SP, Brazil.
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- Martins, Valquiria C. A. (author)
- Fundacao Ctr Controle Oncol Estado Amazonas, Dept Educ & Res, BR-69040010 Manaus, Amazonas, Brazil.
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- Torres, Katia L. (author)
- Fundacao Ctr Controle Oncol Estado Amazonas, Dept Educ & Res, BR-69040010 Manaus, Amazonas, Brazil.
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- Bezerra, Stephania M. (author)
- AC Camargo Canc Ctr, Dept Pathol, BR-01509001 Sao Paulo, SP, Brazil.
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- Claro, Laura C. L. (author)
- AC Camargo Canc Ctr, Dept Pathol, BR-01509001 Sao Paulo, SP, Brazil.;Rede DOr Sao Luiz SA, BR-04321130 Sao Paulo, SP, Brazil.;Santa Casa Misericordia Sao Paulo, BR-01221010 Sao Paulo, SP, Brazil.
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- Pelosof, Adriane G. (author)
- AC Camargo Canc Ctr, Endoscopy, BR-01509001 Sao Paulo, SP, Brazil.
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- Sztokfisz, Claudia Z. (author)
- AC Camargo Canc Ctr, Endoscopy, BR-01509001 Sao Paulo, SP, Brazil.
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- Coimbra, Felipe J. F. (author)
- AC Camargo Canc Ctr, Dept Abdominal Surg, BR-01509001 Sao Paulo, SP, Brazil.;AC Camargo Canc Ctr, Upper GI Oncol Reference Ctr, BR-01509001 Sao Paulo, SP, Brazil.
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- Kowalski, Luiz P. (author)
- AC Camargo Canc Ctr, Dept Head & Neck Surg & Otorhinolaryngol, BR-01509001 Sao Paulo, SP, Brazil.;Univ Sao Paulo, Sch Med, Dept Head & Neck Surg, BR-01246903 Sao Paulo, SP, Brazil.
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- Alves, Fabio A. (author)
- AC Camargo Canc Ctr, Dept Stomatol, BR-01509001 Sao Paulo, SP, Brazil.
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- Zequi, Stenio C. (author)
- AC Camargo Canc Ctr, Dept Urol, BR-01509001 Sao Paulo, SP, Brazil.;AC Camargo Canc Ctr, Natl Inst Sci & Technol Oncogen & Therapeut Innov, BR-01509001 Sao Paulo, SP, Brazil.
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- Udekwu, Klas (author)
- Swedish University of Agricultural Sciences,Sveriges lantbruksuniversitet,Uppsala universitet,Gastroenterologi/hepatologi,Swedish Univ Agr, Dept Aquat Sci & Assessment, POB 7050, S-75007 Uppsala, Sweden.,Institutionen för vatten och miljö,Department of Aquatic Sciences and Assessment,Uppsala University
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- Silva, Israel T. (author)
- AC Camargo Canc Ctr, Lab Computat Biol & Bioinformat, BR-01508010 Sao Paulo, SP, Brazil.
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- Nunes, Diana N. (author)
- AC Camargo Canc Ctr, Lab Med Genom, BR-01508010 Sao Paulo, SP, Brazil.
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- Bartelli, Thais F. (author)
- AC Camargo Canc Ctr, Lab Med Genom, BR-01508010 Sao Paulo, SP, Brazil.
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- Dias-Neto, Emmanuel (author)
- AC Camargo Canc Ctr, Lab Med Genom, BR-01508010 Sao Paulo, SP, Brazil.;Univ Sao Paulo, Hosp Clin, Lab Neurociencias Alzira Denise Hertzog Silva, Inst Psiquiatria,Fac Med, BR-05403010 Sao Paulo, SP, Brazil.
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- Abrantes, Lais L. S. (author)
- AC Camargo Canc Ctr, Int Res Ctr, BR-01508010 Sao Paulo, SP, Brazil.
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AC Camargo Canc Ctr, Lab Med Genom, BR-01508010 Sao Paulo, SP, Brazil AC Camargo Canc Ctr, Lab Computat Biol & Bioinformat, BR-01508010 Sao Paulo, SP, Brazil. (creator_code:org_t)
- 2022-01-27
- 2022
- English.
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In: Genes. - : MDPI. - 2073-4425. ; 13:2
- Related links:
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Abstract
Subject headings
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- Whereas targeted and shotgun sequencing approaches are both powerful in allowing the study of tissue-associated microbiota, the human: microorganism abundance ratios in tissues of interest will ultimately determine the most suitable sequencing approach. In addition, it is possible that the knowledge of the relative abundance of bacteria and fungi during a treatment course or in pathological conditions can be relevant in many medical conditions. Here, we present a qPCR-targeted approach to determine the absolute and relative amounts of bacteria and fungi and demonstrate their relative DNA abundance in nine different human tissue types for a total of 87 samples. In these tissues, fungi genomes are more abundant in stool and skin samples but have much lower levels in other tissues. Bacteria genomes prevail in stool, skin, oral swabs, saliva, and gastric fluids. These findings were confirmed by shotgun sequencing for stool and gastric fluids. This approach may contribute to a more comprehensive view of the human microbiota in targeted studies for assessing the abundance levels of microorganisms during disease treatment/progression and to indicate the most informative methods for studying microbial composition (shotgun versus targeted sequencing) for various samples types.
Subject headings
- MEDICIN OCH HÄLSOVETENSKAP -- Klinisk medicin -- Gastroenterologi (hsv//swe)
- MEDICAL AND HEALTH SCIENCES -- Clinical Medicine -- Gastroenterology and Hepatology (hsv//eng)
- MEDICIN OCH HÄLSOVETENSKAP -- Medicinska och farmaceutiska grundvetenskaper -- Mikrobiologi inom det medicinska området (hsv//swe)
- MEDICAL AND HEALTH SCIENCES -- Basic Medicine -- Microbiology in the medical area (hsv//eng)
Keyword
- microbiome
- mycobiome
- metagenomics
- 16S
- qPCR
- shotgun
Publication and Content Type
- ref (subject category)
- art (subject category)
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de Albuquerque, ...
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Moda, Bruno S.
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Serpa, Marianna ...
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Branco, Gabriela ...
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Defelicibus, Ale ...
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Takenaka, Isabel ...
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de Amorim, Maria ...
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Miola, Elizabeth ...
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Martins, Valquir ...
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Torres, Katia L.
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Bezerra, Stephan ...
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Claro, Laura C. ...
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Pelosof, Adriane ...
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Sztokfisz, Claud ...
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Coimbra, Felipe ...
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Kowalski, Luiz P ...
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Alves, Fabio A.
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Zequi, Stenio C.
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Udekwu, Klas
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Silva, Israel T.
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Nunes, Diana N.
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Bartelli, Thais ...
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Dias-Neto, Emman ...
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Abrantes, Lais L ...
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Uppsala University
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Swedish University of Agricultural Sciences