المؤلفون: Brandon Hickman, Anne Salonen, Alise J. Ponsero, Roosa Jokela, Kaija-Leena Kolho, Willem M. de Vos, Katri Korpela

المصدر: Nature Communications, Vol 15, Iss 1, Pp 1-15 (2024)

مصطلحات موضوعية: Science

وصف الملف: electronic resource

Relation: https://doaj.org/toc/2041-1723

URL الوصول: https://doaj.org/article/3bacf662c565486f8192020aa2f78c1e

المؤلفون: Roosa Jokela, Katariina MM Pärnänen, Alise J Ponsero, Leo Lahti, Kaija-Leena Kolho, Willem M de Vos, Anne Salonen

المصدر: Gut Microbes, Vol 16, Iss 1 (2024)

مصطلحات موضوعية: Infant resistome, early resistome, antibiotic resistance, infant microbiome, Diseases of the digestive system. Gastroenterology, RC799-869

وصف الملف: electronic resource

Relation: https://doaj.org/toc/1949-0976; https://doaj.org/toc/1949-0984

URL الوصول: https://doaj.org/article/94b1063b776347419029f79ea249026d

المؤلفون: Anna K. Hartikainen, Jonna Jalanka, Perttu Lahtinen, Alise J. Ponsero, Tuomas Mertsalmi, Laura Finnegan, Fiona Crispie, Paul D. Cotter, Perttu Arkkila, Reetta Satokari

المصدر: npj Biofilms and Microbiomes, Vol 10, Iss 1, Pp 1-10 (2024)

مصطلحات موضوعية: Microbial ecology, QR100-130

وصف الملف: electronic resource

Relation: https://doaj.org/toc/2055-5008

URL الوصول: https://doaj.org/article/7368523d417b497a98d3ab71a346798c

المؤلفون: Dollwin Matharu, Alise J. Ponsero, Marton Lengyel, Agnes Meszaros-Matwiejuk, Kaija-Leena Kolho, Willem M. de Vos, Dora Molnar-Gabor, Anne Salonen

المصدر: EBioMedicine, Vol 104, Iss , Pp 105182- (2024)

مصطلحات موضوعية: HMOs, Maternal factors, Early life exposures, FUT2, Glycoside hydrolases, Child health, Medicine, Medicine (General), R5-920

وصف الملف: electronic resource

Relation: http://www.sciencedirect.com/science/article/pii/S2352396424002172; https://doaj.org/toc/2352-3964

URL الوصول: https://doaj.org/article/7207f96d44c9485ea6746449e9ffb694

المؤلفون: Solsona, N., Sturbois, A., Desroy, Nicolas, Ponsero, A., Schaal, G., Le Pape, Olivier

المصدر: Estuarine Coastal And Shelf Science (0272-7714) (Elsevier BV), 2024-04 , Vol. 299 , P. 108691 (14p.)

مصطلحات موضوعية: Ecopath, Food web, Shellfish farming, Green algae, Invasive species, Bay of Saint-Brieuc

وصف الملف: application/pdf

Relation: https://archimer.ifremer.fr/doc/00880/99179/109011.pdf; https://archimer.ifremer.fr/doc/00880/99179/

الاتاحة: https://archimer.ifremer.fr/doc/00880/99179/109011.pdf
https://doi.org/10.1016/j.ecss.2024.108691
https://archimer.ifremer.fr/doc/00880/99179/

المؤلفون: Hickman, Brandon, Salonen, Anne, Ponsero, Alise J., Jokela, Roosa, Kolho, Kaija Leena, de Vos, Willem M., Korpela, Katri

المساهمون: HUMI - Human Microbiome Research, Clinicum, Faculty of Medicine, Children's Hospital, HUS Children and Adolescents, Medicum, Willem Meindert Vos de / Principal Investigator, de Vos & Salonen group, Department of Bacteriology and Immunology

مصطلحات موضوعية: Biochemistry, cell and molecular biology, Bacteroides, Bifidobacterium, Child, Preschool, Cohort Studies, Feces, Female, Gastrointestinal Microbiome, Humans, Infant, Newborn, Longitudinal Studies, Male

وصف الملف: application/pdf

Relation: http://hdl.handle.net/10138/586843; 85205275595

الاتاحة: http://hdl.handle.net/10138/586843

المؤلفون: Jokela, Roosa, Pärnänen, Katariina M.M., Ponsero, Alise J., Lahti, Leo, Kolho, Kaija-Leena, de Vos, Willem M., Salonen, Anne

المساهمون: HUMI - Human Microbiome Research, University of Helsinki, Faculty of Medicine, Children's Hospital, HUS Children and Adolescents, Clinicum, Medicum, Willem Meindert Vos de / Principal Investigator, de Vos & Salonen group

مصطلحات موضوعية: antibiotic resistance, early resistome, infant microbiome, Infant resistome, Biomedicine, 11832 Microbiology and virology

وصف الملف: application/pdf

Relation: We thank HELMi study nurses for the recruitment and sample and data collection, and lab personnel for sample and laboratory management and processing. This work was supported by the Academy of Finland [grants 1325103 (AS) and 339172 (AJP)]; Tekes [329/31/2015], and with grants from Pediatric Research Foundation and the Helsinki University Hospital Grant (KLK), Mary and Georg C. Ehrnrooth Foundation (AS and RJ), and the Foundation for Nutrition Research Grant, the Finnish Concordia Fund, and the University of Helsinki Doctoral school, Helsinki, Finland (RJ). CSC \u2013 IT Center for Science, Finland, provided computing for the bioinformatic analyses. The Million Microbiomes from Humans Project (MMHP) is acknowledged for metagenome sequencing. Open access funded by Helsinki University Library. The work was supported by the\u00A0Lastentautien Tutkimuss\u00E4\u00E4ti\u00F6 Mary och Georg C. Ehrnrooths Stiftelse Foundation for Nutrition Research Helsinki University Hospital Grant Academy of Finland [1325103]; University of Helsinki Doctoral school Suomalainen Konkordia-liitto. We thank HELMi study nurses for the recruitment and sample and data collection, and lab personnel for sample and laboratory management and processing. This work was supported by the Academy of Finland [grants 1325103 (AS) and 339172 (AJP)]; Tekes [329/31/2015], and with grants from Pediatric Research Foundation and the Helsinki University Hospital Grant (KLK), Mary and Georg C. Ehrnrooth Foundation (AS and RJ), and the Foundation for Nutrition Research Grant, the Finnish Concordia Fund, and the University of Helsinki Doctoral school, Helsinki, Finland (RJ). CSC\u2013IT Center for Science, Finland, provided computing for the bioinformatic analyses. The Million Microbiomes from Humans Project (MMHP) is acknowledged for metagenome sequencing. Open access funded by Helsinki University Library.; Jokela , R , Pärnänen , K M M , Ponsero , A J , Lahti , L , Kolho , K-L , de Vos , W M & Salonen , A 2024 , ' A cohort study in family triads : impact of gut microbiota composition and early life exposures on intestinal resistome during the first two years of life ' , Gut Microbes , vol. 16 , no. 1 , 2383746 . https://doi.org/10.1080/19490976.2024.2383746; ORCID: /0000-0001-9170-8415/work/165729294; ORCID: /0000-0002-4144-6573/work/165734517; ORCID: /0000-0002-4125-7561/work/165736877; ORCID: /0000-0002-6960-7447/work/165737554; http://hdl.handle.net/10138/584673; 66817745-8078-4a3b-b9b0-58700191e377; 85200222944; 001283158800001

الاتاحة: http://hdl.handle.net/10138/584673

المؤلفون: Hartikainen, Anna K., Jalanka, Jonna, Lahtinen, Perttu, Ponsero, Alise J., Mertsalmi, Tuomas, Finnegan, Laura, Crispie, Fiona, Cotter, Paul D., Arkkila, Perttu, Satokari, Reetta

المساهمون: HUMI - Human Microbiome Research, University of Helsinki, Faculty of Medicine, Päijät-Häme Welfare Consortium, HUS Neurocenter, Neurologian yksikkö, Department of Neurosciences, HUS Abdominal Center, Department of Medicine, Clinicum, Gastroenterologian yksikkö, Reetta Maria Satokari / Principal Investigator

مصطلحات موضوعية: Biomedicine, General medicine, internal medicine and other clinical medicine

وصف الملف: application/pdf

Relation: Hartikainen , A K , Jalanka , J , Lahtinen , P , Ponsero , A J , Mertsalmi , T , Finnegan , L , Crispie , F , Cotter , P D , Arkkila , P & Satokari , R 2024 , ' Fecal microbiota transplantation influences microbiota without connection to symptom relief in irritable bowel syndrome patients ' , npj Biofilms and Microbiomes , vol. 10 , no. 1 , 73 . https://doi.org/10.1038/s41522-024-00549-x; ORCID: /0000-0002-4125-7561/work/167061514; ORCID: /0000-0002-3847-8136/work/167061552; http://hdl.handle.net/10138/585353; 431494f4-e003-4dde-b74d-c024726444c1; 85202157769; 001298920500001

الاتاحة: http://hdl.handle.net/10138/585353

المؤلفون: Dubois, Léonard, Valles-Colomer, Mireia, Ponsero, Alise, Helve, Otto, Andersson, Sture, Kolho, Kaija Leena, Asnicar, Francesco, Korpela, Katri, Salonen, Anne, Segata, Nicola, de Vos, Willem M.

المصدر: Cell Host and Microbe 32 (2024) 6 ; ISSN: 1931-3128

مصطلحات موضوعية: early life, father-infant, fecal microbiota transplantation, maternal FMT, maternal transmission, microbiome seeding, microbiota, paternal transmission, strain sharing

وصف الملف: application/pdf

Relation: https://edepot.wur.nl/662239

الاتاحة: https://research.wur.nl/en/publications/paternal-and-induced-gut-microbiota-seeding-complement-mother-to-
https://doi.org/10.1016/j.chom.2024.05.004

المؤلفون: Matharu, Dollwin, Ponsero, Alise J., Lengyel, Marton, Meszaros-Matwiejuk, Agnes, Kolho, Kaija-Leena, de Vos, Willem M., Molnar-Gabor, Dora, Salonen, Anne

المساهمون: HUMI - Human Microbiome Research, Children's Hospital, HUS Children and Adolescents, Clinicum, Medicum, Willem Meindert Vos de / Principal Investigator, de Vos & Salonen group

مصطلحات موضوعية: Child health, Early life exposures, FUT2, Glycoside hydrolases, HMOs, Maternal factors, Biomedicine

وصف الملف: application/pdf

Relation: Sweet Crosstalk EU H2020 MSCA ITN, Academy of Finland, Mary and Georg C. Ehrnrooth Foundation, P\u00E4ivikki and Sakari Sohlberg Foundation, and Tekes.DM acknowledges the funding for Ph.D. received through European Union's H2020-MSCA-ITN-2018 Sweet Crosstalk project under grant agreement no. 814102.We thank HELMI study nurses, for their essential roles in recruitment, sample collection, and lab management. We thank Finnish Red Cross Blood Service for the infant FUT2 genotyping. We thank MMHP (Million Metagenomes of Human Project) for providing the sequencing. We are grateful to the Finnish IT Centre for Science for computational resources. We thank the team at DSM-Firmenich for training and support. We thank our lab members and other scientists affiliated with the Human Microbiome Research program for useful discussions. Lastly, heartfelt appreciation to participating families for making this study possible. Open access funding was provided by Helsinki University Library services. The study was funded by grants from European Union's Horizon 2020 Research and Innovation Program H2020 MSCA (Sweet Crosstalk) project under grant agreement No. 814102 (AS), Academy of Finland 1325103 (AS) and 339172 (AP), Mary and Georg C. Ehrnrooth Foundation (AS), P\u00E4ivikki and Sakari Sohlberg Foundation (AS), and Tekes 329/31/2015 (WMdV). Open access funding was provided by Helsinki University Library services. The study was funded by grants from European Union's Horizon 2020 Research and Innovation Program H2020 MSCA (Sweet Crosstalk) project under grant agreement No. 814102 (AS), Academy of Finland1325103 (AS) and 339172 (AP), Mary and Georg C. Ehrnrooth Foundation (AS), P\u00E4ivikki and Sakari Sohlberg foundation (AS), and Tekes 329/31/2015 (WMdV). DM acknowledges the funding for Ph.D. received through European Union\u2019s H2020-MSCA-ITN-2018 Sweet Crosstalk project under grant agreement no. 814102.We thank HELMI study nurses, for their essential roles in recruitment, sample collection, and lab management. We thank Finnish Red Cross Blood Service for the infant FUT2 genotyping. We thank MMHP (Million Metagenomes of Human Project) for providing the sequencing. We are grateful to the Finnish IT Centre for Science for computational resources. We thank the team at DSM-Firmenich for training and support. We thank our lab members and other scientists affiliated with the Human Microbiome Research program for useful discussions. Lastly, heartfelt appreciation to participating families for making this study possible.; Matharu , D , Ponsero , A J , Lengyel , M , Meszaros-Matwiejuk , A , Kolho , K-L , de Vos , W M , Molnar-Gabor , D & Salonen , A 2024 , ' Human milk oligosaccharide composition is affected by season and parity and associates with infant gut microbiota in a birth mode dependent manner in a Finnish birth cohort ' , EBioMedicine , vol. 104 , 105182 . https://doi.org/10.1016/j.ebiom.2024.105182; ORCID: /0000-0001-9170-8415/work/161720842; ORCID: /0000-0002-4125-7561/work/161726279; ORCID: /0000-0002-6960-7447/work/161727263; http://hdl.handle.net/10138/577167; 6a92dc42-3bd1-47ab-83fc-8b738c85422c; 85194885826

الاتاحة: http://hdl.handle.net/10138/577167

المؤلفون: Ponsero, Alise Jany, Miller, Matthew, Hurwitz, Bonnie Louise

المساهمون: HUMI - Human Microbiome Research

مصطلحات موضوعية: De-novo comparative metagenomics, k-mers, metagenomes, Biomedicine

وصف الملف: application/pdf

Relation: This work was supported by grants from the Academy of Finland (339172 to AP) and Gordon and Betty Moore Foundation (GBMF 8751 to BH).; Ponsero , A J , Miller , M & Hurwitz , B L 2023 , ' Comparison of k-mer-based de novo comparative metagenomic tools and approaches ' , Microbiome research reports , vol. 2 , no. 4 , 27 . https://doi.org/10.20517/mrr.2023.26; ORCID: /0000-0002-4125-7561/work/154010604; http://hdl.handle.net/10138/571504; 04878cf7-c007-4b25-b853-a158d55177b0; 85181498500

الاتاحة: http://hdl.handle.net/10138/571504

المؤلفون: Blumberg, Kai, Miller, Matthew, Ponsero, Alise, Hurwitz, Bonnie

المساهمون: HUMI - Human Microbiome Research, Faculty of Medicine

مصطلحات موضوعية: FAIR data, metagenomics, microbial ecology, ontology, RDF, 11832 Microbiology and virology

وصف الملف: application/pdf

Relation: This work was supported by the National Science Foundation [OCE-1639614 Planet Microbe to B.L.H., in part], National Science Foundation [CISE-1640775 Ocean Cloud Commons to B.L.H., in part], the Simons Foundation muSCOPE [ID 481471 to B.L.H.], the Gordon and Betty Moore Foundation [GBMF 8751 to B.L.H.], and the Academy of Finland [ID 339172 to AP]. Funding for open-access charge: Sarver Heart Center's Finley and Florence Brown Endowed Research Award. This work was supported by the National Science Foundation [OCE-1639614 Planet Microbe to B.L.H., in part], National Science Foundation [CISE-1640775 Ocean Cloud Commons to B.L.H., in part], the Simons Foundation muSCOPE [ID 481471 to B.L.H.], the Gordon and Betty Moore Foundation [GBMF 8751 to B.L.H.], and the Academy of Finland [ID 339172 to AP]. Funding for open-access charge: Sarver Heart Center’s Finley and Florence Brown Endowed Research Award. We thank Dr. Pier L. Buttigieg and Professor Antje Boetius for helping foster the original idea for the ontology-based data discovery workflow that we built upon in this article, Dr. Peter Winstanley for the Semantic Web tooling suggestions used in this work, Dr. James Overton for allowing us to reuse a portion of an RDF graph structure he created, Adam Michel from the University of Arizona IT services for helping us make our new database’s API publicly accessible, Matthew Bomhoff for providing example code for querying the Planet Microbe Database’s API, Heidi Steiner and the University of Arizona Sarver Heart Center for funding the publication of this work, and Chris Mungall, as well as members of the Hurwitz Lab, for their feedback and discussions of the work.; Blumberg , K , Miller , M , Ponsero , A & Hurwitz , B 2023 , ' Ontology-driven analysis of marine metagenomics : what more can we learn from our data? ' , GigaScience , vol. 12 , giad088 . https://doi.org/10.1093/gigascience/giad088; ORCID: /0000-0002-4125-7561/work/151233697; http://hdl.handle.net/10138/569804; bc6a3f18-ee38-4e1e-bee9-5401892c4fb0; 85176410996; 001189196000014

الاتاحة: http://hdl.handle.net/10138/569804

المؤلفون: Dikareva, Evgenia, Matharu, Dollwin, Lahtinen, Emilia, Kolho, Kaija-Leena, De Vos, Willem M., Salonen, Anne, Ponsero, Alise J.

المساهمون: HUMI - Human Microbiome Research, Research Programs Unit, Faculty of Medicine, Children's Hospital, HUS Children and Adolescents, Clinicum, Medicum, Willem Meindert Vos de / Principal Investigator, de Vos & Salonen group, Faculty Common Matters (Faculty of Biology and Environmental Sciences)

مصطلحات موضوعية: Auxilliary metabolic genes, Bacteriophages, Infant gut microbiota, Lysogeny, metagenome assembled genomes (MAGs), Prophage, 11832 Microbiology and virology

وصف الملف: application/pdf

Relation: Dikareva , E , Matharu , D , Lahtinen , E , Kolho , K-L , De Vos , W M , Salonen , A & Ponsero , A J 2023 , ' An extended catalog of integrated prophages in the infant and adult fecal microbiome shows high prevalence of lysogeny ' , Frontiers in Microbiology , vol. 14 , 1254535 . https://doi.org/10.3389/fmicb.2023.1254535; ORCID: /0000-0002-6960-7447/work/145455907; ORCID: /0000-0001-9170-8415/work/145462961; ORCID: /0000-0002-4125-7561/work/145465792; eea2bc59-1fb3-4c49-a017-994ff1d51735; http://hdl.handle.net/10138/571395; 001066661300001

الاتاحة: http://hdl.handle.net/10138/571395

المؤلفون: Ponsero, Alise, Bomhoff, Matthew, Blumberg, Kai, Youens-Clark, Ken, Herz, Nina, Wood-Charlson, Elisha, Delong, Edward, Hurwitz, Bonnie

المصدر: Nucleic Acids Research. 49(D1)

مصطلحات موضوعية: Aquatic Organisms, Data Analysis, Databases, Genetic, Environment, Metagenomics, Planets, Reference Standards, User-Computer Interface

وصف الملف: application/pdf

URL الوصول: https://escholarship.org/uc/item/9p54q2px
https://escholarship.org/content/qt9p54q2px/qt9p54q2px.pdf

المؤلفون: Blumberg, Kai, Ponsero, Alise, Bomhoff, Matthew, Wood-Charlson, Elisha, DeLong, Edward, Hurwitz, Bonnie

مصطلحات موضوعية: FAIR, cyberinfrastructure (CI), marine microbiology, metagenomics, next generation sequencing—NGS, omics, ontology

وصف الملف: application/pdf

URL الوصول: https://escholarship.org/uc/item/4z2851nj
https://escholarship.org/content/qt4z2851nj/qt4z2851nj.pdf

المؤلفون: Evgenia Dikareva, Dollwin Matharu, Emilia Lahtinen, Kaija-Leena Kolho, Willem M. De Vos, Anne Salonen, Alise J. Ponsero

المصدر: Frontiers in Microbiology, Vol 14 (2023)

مصطلحات موضوعية: infant gut microbiota, bacteriophages, prophage, lysogeny, metagenome assembled genomes (MAGs), auxilliary metabolic genes, Microbiology, QR1-502

وصف الملف: electronic resource

Relation: https://www.frontiersin.org/articles/10.3389/fmicb.2023.1254535/full; https://doaj.org/toc/1664-302X

URL الوصول: https://doaj.org/article/7e1418f59e8a4b78aef57fa6be74f866

المؤلفون: Ponsero, Alise

Thesis Advisors: Université Paris-Saclay (ComUE), Toledano, Michel

مصطلحات موضوعية: Endoplasmique réticulum, Sécrétion protéique, Glutation, Homéostasie redox, Reticulum endoplasmique, Protein secretion, Glutathione, Redox homeostasis

الاتاحة: http://www.theses.fr/2016SACLS276/document

المؤلفون: Connor, Ryan, Brister, Rodney, Buchmann, Jan, Deboutte, Ward, Edwards, Rob, Martí-Carreras, Joan, Tisza, Mike, Zalunin, Vadim, Andrade-Martínez, Juan, Cantu, Adrian, DAmour, Michael, Efremov, Alexandre, Fleischmann, Lydia, Forero-Junco, Laura, Garmaeva, Sanzhima, Giluso, Melissa, Glickman, Cody, Henderson, Margaret, Kellman, Benjamin, Kristensen, David, Leubsdorf, Carl, Levi, Kyle, Levi, Shane, Pakala, Suman, Peddu, Vikas, Ponsero, Alise, Ribeiro, Eldred, Roy, Farrah, Rutter, Lindsay, Saha, Surya, Shakya, Migun, Shean, Ryan, Miller, Matthew, Tully, Benjamin, Turkington, Christopher, Youens-Clark, Ken, Vanmechelen, Bert, Busby, Ben

المصدر: Genes. 10(9)

مصطلحات موضوعية: SRA, STRIDES, cloud computing, hackathon, infrastructure, metagenomic, viruses, Big Data, Cloud Computing, Genome, Human, Genome, Viral, Humans, Metagenome, Metagenomics, Software

وصف الملف: application/pdf

URL الوصول: https://escholarship.org/uc/item/4qm7z4j8
https://escholarship.org/content/qt4qm7z4j8/qt4qm7z4j8.pdf

المؤلفون: Youens-Clark, Ken, Bomhoff, Matt, Ponsero, Alise, Wood-Charlson, Elisha, Lynch, Joshua, Choi, Illyoung, Hartman, John, Hurwitz, Bonnie

المصدر: GigaScience. 8(7)

مصطلحات موضوعية: bioinformatics, cloud computing, cyberinfrastructure, metagenomics, Big Data, Metagenome, Metagenomics, Microbiota, Software

وصف الملف: application/pdf

URL الوصول: https://escholarship.org/uc/item/7f1372z2
https://escholarship.org/content/qt7f1372z2/qt7f1372z2.pdf

المؤلفون: Roosa Jokela, Alise J. Ponsero, Evgenia Dikareva, Xiaodong Wei, Kaija-Leena Kolho, Katri Korpela, Willem M. de Vos, Anne Salonen

المصدر: EBioMedicine, Vol 94, Iss , Pp 104695- (2023)

مصطلحات موضوعية: Infant gut microbiota, Birth cohort, Variance partitioning, Parity, Stool consistency, Technical confounders, Medicine, Medicine (General), R5-920

وصف الملف: electronic resource

Relation: http://www.sciencedirect.com/science/article/pii/S2352396423002608; https://doaj.org/toc/2352-3964

URL الوصول: https://doaj.org/article/28fef4e0a4874fedbe1a4c140cec22be