Dynamic molecular changes during the first week of human life follow a robust developmental trajectory

Systems biology can unravel complex biology but has not been extensively applied to human newborns, a group highly vulnerable to a wide range of diseases. We optimized methods to extract transcriptomic, proteomic, metabolomic, cytokine/chemokine, and single cell immune phenotyping data from <1 ml...

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Published inNature communications Vol. 10; no. 1; pp. 1092 - 14
Main Authors Lee, Amy H., Shannon, Casey P., Amenyogbe, Nelly, Bennike, Tue B., Diray-Arce, Joann, Idoko, Olubukola T., Gill, Erin E., Ben-Othman, Rym, Pomat, William S., van Haren, Simon D., Cao, Kim-Anh Lê, Cox, Momoudou, Darboe, Alansana, Falsafi, Reza, Ferrari, Davide, Harbeson, Daniel J., He, Daniel, Bing, Cai, Hinshaw, Samuel J., Ndure, Jorjoh, Njie-Jobe, Jainaba, Pettengill, Matthew A., Richmond, Peter C., Ford, Rebecca, Saleu, Gerard, Masiria, Geraldine, Matlam, John Paul, Kirarock, Wendy, Roberts, Elishia, Malek, Mehrnoush, Sanchez-Schmitz, Guzmán, Singh, Amrit, Angelidou, Asimenia, Smolen, Kinga K., Brinkman, Ryan R., Ozonoff, Al, Hancock, Robert E. W., van den Biggelaar, Anita H. J., Steen, Hanno, Tebbutt, Scott J., Kampmann, Beate, Levy, Ofer, Kollmann, Tobias R.
Format Journal Article
LanguageEnglish
Published London Nature Publishing Group UK 12.03.2019
Nature Publishing Group
Nature Portfolio
Subjects
38
38/91
49/31
631/136
631/1647/2067
631/1647/320
631/250
631/553/2701
82/58
96/21
Biology
Blood
Chemokines
Chemokines - blood
Child Development - physiology
Cohort Studies
Computer applications
Cytokines - blood
Data integration
Gambia
Gene Expression Profiling
Humanities and Social Sciences
Humans
Immunophenotyping
Infant, Newborn - blood
Infant, Newborn - immunology
Interferon
Metabolomics
multidisciplinary
Neonates
Ontogeny
Papua New Guinea
Phenotyping
Proteomics
Science
Science (multidisciplinary)
Systems Biology
Trajectories
Gambia
Papua New Guinea
Online AccessGet full text
ISSN2041-1723
2041-1723
DOI10.1038/s41467-019-08794-x

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Abstract Systems biology can unravel complex biology but has not been extensively applied to human newborns, a group highly vulnerable to a wide range of diseases. We optimized methods to extract transcriptomic, proteomic, metabolomic, cytokine/chemokine, and single cell immune phenotyping data from <1 ml of blood, a volume readily obtained from newborns. Indexing to baseline and applying innovative integrative computational methods reveals dramatic changes along a remarkably stable developmental trajectory over the first week of life. This is most evident in changes of interferon and complement pathways, as well as neutrophil-associated signaling. Validated across two independent cohorts of newborns from West Africa and Australasia, a robust and common trajectory emerges, suggesting a purposeful rather than random developmental path. Systems biology and innovative data integration can provide fresh insights into the molecular ontogeny of the first week of life, a dynamic developmental phase that is key for health and disease. The first week of life impacts health for all of life, but the mechanisms are little-understood. Here the authors extract multi-omic data from small volumes of blood to study the dynamic molecular changes during the first week of life, revealing a robust developmental trajectory common to different populations.
AbstractList Systems biology can unravel complex biology but has not been extensively applied to human newborns, a group highly vulnerable to a wide range of diseases. We optimized methods to extract transcriptomic, proteomic, metabolomic, cytokine/chemokine, and single cell immune phenotyping data from <1 ml of blood, a volume readily obtained from newborns. Indexing to baseline and applying innovative integrative computational methods reveals dramatic changes along a remarkably stable developmental trajectory over the first week of life. This is most evident in changes of interferon and complement pathways, as well as neutrophil-associated signaling. Validated across two independent cohorts of newborns from West Africa and Australasia, a robust and common trajectory emerges, suggesting a purposeful rather than random developmental path. Systems biology and innovative data integration can provide fresh insights into the molecular ontogeny of the first week of life, a dynamic developmental phase that is key for health and disease. The first week of life impacts health for all of life, but the mechanisms are little-understood. Here the authors extract multi-omic data from small volumes of blood to study the dynamic molecular changes during the first week of life, revealing a robust developmental trajectory common to different populations.
Systems biology can unravel complex biology but has not been extensively applied to human newborns, a group highly vulnerable to a wide range of diseases. We optimized methods to extract transcriptomic, proteomic, metabolomic, cytokine/chemokine, and single cell immune phenotyping data from <1 ml of blood, a volume readily obtained from newborns. Indexing to baseline and applying innovative integrative computational methods reveals dramatic changes along a remarkably stable developmental trajectory over the first week of life. This is most evident in changes of interferon and complement pathways, as well as neutrophil-associated signaling. Validated across two independent cohorts of newborns from West Africa and Australasia, a robust and common trajectory emerges, suggesting a purposeful rather than random developmental path. Systems biology and innovative data integration can provide fresh insights into the molecular ontogeny of the first week of life, a dynamic developmental phase that is key for health and disease.The first week of life impacts health for all of life, but the mechanisms are little-understood. Here the authors extract multi-omic data from small volumes of blood to study the dynamic molecular changes during the first week of life, revealing a robust developmental trajectory common to different populations.
Systems biology can unravel complex biology but has not been extensively applied to human newborns, a group highly vulnerable to a wide range of diseases. We optimized methods to extract transcriptomic, proteomic, metabolomic, cytokine/chemokine, and single cell immune phenotyping data from <1 ml of blood, a volume readily obtained from newborns. Indexing to baseline and applying innovative integrative computational methods reveals dramatic changes along a remarkably stable developmental trajectory over the first week of life. This is most evident in changes of interferon and complement pathways, as well as neutrophil-associated signaling. Validated across two independent cohorts of newborns from West Africa and Australasia, a robust and common trajectory emerges, suggesting a purposeful rather than random developmental path. Systems biology and innovative data integration can provide fresh insights into the molecular ontogeny of the first week of life, a dynamic developmental phase that is key for health and disease.Systems biology can unravel complex biology but has not been extensively applied to human newborns, a group highly vulnerable to a wide range of diseases. We optimized methods to extract transcriptomic, proteomic, metabolomic, cytokine/chemokine, and single cell immune phenotyping data from <1 ml of blood, a volume readily obtained from newborns. Indexing to baseline and applying innovative integrative computational methods reveals dramatic changes along a remarkably stable developmental trajectory over the first week of life. This is most evident in changes of interferon and complement pathways, as well as neutrophil-associated signaling. Validated across two independent cohorts of newborns from West Africa and Australasia, a robust and common trajectory emerges, suggesting a purposeful rather than random developmental path. Systems biology and innovative data integration can provide fresh insights into the molecular ontogeny of the first week of life, a dynamic developmental phase that is key for health and disease.
Systems biology can unravel complex biology but has not been extensively applied to human newborns, a group highly vulnerable to a wide range of diseases. We optimized methods to extract transcriptomic, proteomic, metabolomic, cytokine/chemokine, and single cell immune phenotyping data from <1 ml of blood, a volume readily obtained from newborns. Indexing to baseline and applying innovative integrative computational methods reveals dramatic changes along a remarkably stable developmental trajectory over the first week of life. This is most evident in changes of interferon and complement pathways, as well as neutrophil-associated signaling. Validated across two independent cohorts of newborns from West Africa and Australasia, a robust and common trajectory emerges, suggesting a purposeful rather than random developmental path. Systems biology and innovative data integration can provide fresh insights into the molecular ontogeny of the first week of life, a dynamic developmental phase that is key for health and disease.
The first week of life impacts health for all of life, but the mechanisms are little-understood. Here the authors extract multi-omic data from small volumes of blood to study the dynamic molecular changes during the first week of life, revealing a robust developmental trajectory common to different populations.
ArticleNumber 1092
Author Matlam, John Paul
Darboe, Alansana
Brinkman, Ryan R.
Harbeson, Daniel J.
Pomat, William S.
Hinshaw, Samuel J.
Ford, Rebecca
Diray-Arce, Joann
Amenyogbe, Nelly
Singh, Amrit
Ozonoff, Al
Hancock, Robert E. W.
Levy, Ofer
Malek, Mehrnoush
Kirarock, Wendy
Cao, Kim-Anh Lê
Falsafi, Reza
Pettengill, Matthew A.
Ndure, Jorjoh
Kampmann, Beate
van den Biggelaar, Anita H. J.
Roberts, Elishia
Lee, Amy H.
Gill, Erin E.
van Haren, Simon D.
He, Daniel
Smolen, Kinga K.
Cox, Momoudou
Ferrari, Davide
Shannon, Casey P.
Saleu, Gerard
Angelidou, Asimenia
Steen, Hanno
Idoko, Olubukola T.
Ben-Othman, Rym
Richmond, Peter C.
Masiria, Geraldine
Tebbutt, Scott J.
Bennike, Tue B.
Kollmann, Tobias R.
Bing, Cai
Sanchez-Schmitz, Guzmán
Njie-Jobe, Jainaba
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BackLink https://www.ncbi.nlm.nih.gov/pubmed/30862783$$D View this record in MEDLINE/PubMed
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Snippet Systems biology can unravel complex biology but has not been extensively applied to human newborns, a group highly vulnerable to a wide range of diseases. We...
The first week of life impacts health for all of life, but the mechanisms are little-understood. Here the authors extract multi-omic data from small volumes of...
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Biology
Blood
Chemokines
Chemokines - blood
Child Development - physiology
Cohort Studies
Computer applications
Cytokines - blood
Data integration
Gambia
Gene Expression Profiling
Humanities and Social Sciences
Humans
Immunophenotyping
Infant, Newborn - blood
Infant, Newborn - immunology
Interferon
Metabolomics
multidisciplinary
Neonates
Ontogeny
Papua New Guinea
Phenotyping
Proteomics
Science
Science (multidisciplinary)
Systems Biology
Trajectories
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Title Dynamic molecular changes during the first week of human life follow a robust developmental trajectory
URI https://link.springer.com/article/10.1038/s41467-019-08794-x
https://www.ncbi.nlm.nih.gov/pubmed/30862783
https://www.proquest.com/docview/2190465674
https://www.proquest.com/docview/2191010057
https://pubmed.ncbi.nlm.nih.gov/PMC6414553
https://doaj.org/article/e7ef77b9e7334ea3b111c65372e1f94f
Volume 10
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