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  1. Research

    Legal immigrants: invasion of alien microbial communities during winter occurring desert dust storms

    A critical aspect regarding the global dispersion of pathogenic microorganisms is associated with atmospheric movement of soil particles. Especially, desert dust storms can transport alien microorganisms over ...

    Tobias Weil, Carlotta De Filippo, Davide Albanese, Claudio Donati, Massimo Pindo, Lorenzo Pavarini, Federico Carotenuto, Massimiliano Pasqui, Luisa Poto, Jacopo Gabrieli, Carlo Barbante, Birgit Sattler, Duccio Cavalieri and Franco Miglietta

    Microbiome 2017 5:32

    Published on: 10 March 2017

  2. Review

    Intestinal dysbiosis in preterm infants preceding necrotizing enterocolitis: a systematic review and meta-analysis

    Necrotizing enterocolitis (NEC) is a catastrophic disease of preterm infants, and microbial dysbiosis has been implicated in its pathogenesis. Studies evaluating the microbiome in NEC and preterm infants lack ...

    Mohan Pammi, Julia Cope, Phillip I. Tarr, Barbara B. Warner, Ardythe L. Morrow, Volker Mai, Katherine E. Gregory, J. Simon Kroll, Valerie McMurtry, Michael J Ferris, Lars Engstrand, Helene Engstrand Lilja, Emily B. Hollister, James Versalovic and Josef Neu

    Microbiome 2017 5:31

    Published on: 9 March 2017

  3. Research

    Childhood BMI in relation to microbiota in infancy and lifetime antibiotic use

    Children with high body mass index (BMI) at preschool age are at risk of developing obesity. Early identification of factors that increase the risk of excessive weight gain could help direct preventive actions...

    K. Korpela, M. A. C. Zijlmans, M. Kuitunen, K. Kukkonen, E. Savilahti, A. Salonen, C. de Weerth and W. M. de Vos

    Microbiome 2017 5:26

    Published on: 3 March 2017

  4. Research

    Normalization and microbial differential abundance strategies depend upon data characteristics

    Data from 16S ribosomal RNA (rRNA) amplicon sequencing present challenges to ecological and statistical interpretation. In particular, library sizes often vary over several ranges of magnitude, and the data co...

    Sophie Weiss, Zhenjiang Zech Xu, Shyamal Peddada, Amnon Amir, Kyle Bittinger, Antonio Gonzalez, Catherine Lozupone, Jesse R. Zaneveld, Yoshiki Vázquez-Baeza, Amanda Birmingham, Embriette R. Hyde and Rob Knight

    Microbiome 2017 5:27

    Published on: 3 March 2017

  5. Research

    Structural variability and niche differentiation in the rhizosphere and endosphere bacterial microbiome of field-grown poplar trees

    The plant microbiome represents one of the key determinants of plant health and productivity by providing a plethora of functional capacities such as access to low-abundance nutrients, suppression of phytopath...

    Bram Beckers, Michiel Op De Beeck, Nele Weyens, Wout Boerjan and Jaco Vangronsveld

    Microbiome 2017 5:25

    Published on: 23 February 2017

  6. Research

    New evidences on the altered gut microbiota in autism spectrum disorders

    Autism spectrum disorders (ASDs) are neurodevelopmental conditions characterized by social and behavioural impairments. In addition to neurological symptoms, ASD subjects frequently suffer from gastrointestina...

    Francesco Strati, Duccio Cavalieri, Davide Albanese, Claudio De Felice, Claudio Donati, Joussef Hayek, Olivier Jousson, Silvia Leoncini, Daniela Renzi, Antonio Calabrò and Carlotta De Filippo

    Microbiome 2017 5:24

    Published on: 22 February 2017

  7. Research

    Mentholation affects the cigarette microbiota by selecting for bacteria resistant to harsh environmental conditions and selecting against potential bacterial pathogens

    There is a paucity of data regarding the microbial constituents of tobacco products and their impacts on public health. Moreover, there has been no comparative characterization performed on the bacterial micro...

    Jessica Chopyk, Suhana Chattopadhyay, Prachi Kulkarni, Emma Claye, Kelsey R. Babik, Molly C. Reid, Eoghan M. Smyth, Lauren E. Hittle, Joseph N. Paulson, Raul Cruz-Cano, Mihai Pop, Stephanie S. Buehler, Pamela I. Clark, Amy R. Sapkota and Emmanuel F. Mongodin

    Microbiome 2017 5:22

    Published on: 15 February 2017

  8. Research

    Sputum DNA sequencing in cystic fibrosis: non-invasive access to the lung microbiome and to pathogen details

    Cystic fibrosis (CF) is a life-threatening genetic disorder, characterized by chronic microbial lung infections due to abnormally viscous mucus secretions within airways. The clinical management of CF typicall...

    Rounak Feigelman, Christian R. Kahlert, Florent Baty, Frank Rassouli, Rebekka L. Kleiner, Philipp Kohler, Martin H. Brutsche and Christian von Mering

    Microbiome 2017 5:20

    Published on: 10 February 2017

  9. Research

    Resistant starch can improve insulin sensitivity independently of the gut microbiota

    Obesity-related diseases, including type 2 diabetes and cardiovascular disease, have reached epidemic proportions in industrialized nations, and dietary interventions for their prevention are therefore importa...

    Laure B. Bindels, Rafael R. Segura Munoz, João Carlos Gomes-Neto, Valentin Mutemberezi, Inés Martínez, Nuria Salazar, Elizabeth A. Cody, Maria I. Quintero-Villegas, Hatem Kittana, Clara G de los Reyes-Gavilán, Robert J. Schmaltz, Giulio G. Muccioli, Jens Walter and Amanda E. Ramer-Tait

    Microbiome 2017 5:12

    Published on: 7 February 2017

  10. Letter to the Editor

    Gut metagenomes of type 2 diabetic patients have characteristic single-nucleotide polymorphism distribution in Bacteroides coprocola

    Gut microbes play a critical role in human health and disease, and researchers have begun to characterize their genomes, the so-called gut metagenome. Thus far, metagenomics studies have focused on genus- or s...

    Yaowen Chen, Zongcheng Li, Shuofeng Hu, Jian Zhang, Jiaqi Wu, Ningsheng Shao, Xiaochen Bo, Ming Ni and Xiaomin Ying

    Microbiome 2017 5:15

    Published on: 1 February 2017

  11. Research

    Gut microbiota dysbiosis contributes to the development of hypertension

    Recently, the potential role of gut microbiome in metabolic diseases has been revealed, especially in cardiovascular diseases. Hypertension is one of the most prevalent cardiovascular diseases worldwide, yet w...

    Jing Li, Fangqing Zhao, Yidan Wang, Junru Chen, Jie Tao, Gang Tian, Shouling Wu, Wenbin Liu, Qinghua Cui, Bin Geng, Weili Zhang, Ryan Weldon, Kelda Auguste, Lei Yang, Xiaoyan Liu, Li Chen…

    Microbiome 2017 5:14

    Published on: 1 February 2017

  12. Methodology

    Fast and simple protein-alignment-guided assembly of orthologous gene families from microbiome sequencing reads

    Microbiome sequencing projects typically collect tens of millions of short reads per sample. Depending on the goals of the project, the short reads can either be subjected to direct sequence analysis or be ass...

    Daniel H. Huson, Rewati Tappu, Adam L Bazinet, Chao Xie, Michael P. Cummings, Kay Nieselt and Rohan Williams

    Microbiome 2017 5:11

    Published on: 25 January 2017

  13. Research

    Distinguishing potential bacteria-tumor associations from contamination in a secondary data analysis of public cancer genome sequence data

    A variety of bacteria are known to influence carcinogenesis. Therefore, we sought to investigate if publicly available whole genome and whole transcriptome sequencing data generated by large public cancer geno...

    Kelly M. Robinson, Jonathan Crabtree, John S. A. Mattick, Kathleen E. Anderson and Julie C. Dunning Hotopp

    Microbiome 2017 5:9

    Published on: 25 January 2017

  14. Research

    Microbiota Transfer Therapy alters gut ecosystem and improves gastrointestinal and autism symptoms: an open-label study

    Autism spectrum disorders (ASD) are complex neurobiological disorders that impair social interactions and communication and lead to restricted, repetitive, and stereotyped patterns of behavior, interests, and ...

    Dae-Wook Kang, James B. Adams, Ann C. Gregory, Thomas Borody, Lauren Chittick, Alessio Fasano, Alexander Khoruts, Elizabeth Geis, Juan Maldonado, Sharon McDonough-Means, Elena L. Pollard, Simon Roux, Michael J. Sadowsky, Karen Schwarzberg Lipson, Matthew B. Sullivan, J. Gregory Caporaso…

    Microbiome 2017 5:10

    Published on: 23 January 2017

  15. Research

    The interaction between vaginal microbiota, cervical length, and vaginal progesterone treatment for preterm birth risk

    Preterm birth is the primary cause of infant death worldwide. A short cervix in the second trimester of pregnancy is a risk factor for preterm birth. In specific patient cohorts, vaginal progesterone reduces t...

    Lindsay M. Kindinger, Phillip R. Bennett, Yun S Lee, Julian R. Marchesi, Ann Smith, Stefano Cacciatore, Elaine Holmes, Jeremy K. Nicholson, T. G. Teoh and David A. MacIntyre

    Microbiome 2017 5:6

    Published on: 19 January 2017

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