Evidence map›Paper›PMID 35508452›Full record

ArticleNature communications2022

Elucidating Human Milk Oligosaccharide biosynthetic genes through network-based multi-omics integration.

Benjamin P Kellman, Anne Richelle, Jeong-Yeh Yang, Digantkumar Chapla, Austin W T Chiang, Julia A Najera, Chenguang Liang, Annalee Fürst, Bokan Bao, Natalia Koga and 6 more

Open access · goldAbstract read
In one paragraph

Article in Nature communications, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 29 papers, 1 of them a synthesis that pooled it.

0numbers the graph read from it
0cells of the map it votes in
29citing papers in PubMed, 1 pooled it
6.6field-weighted citation impact, top 2% of its field
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

29 citing papers in PubMed, 1 synthesis or guideline pooled it, 64 citations in OpenAlex.

  1. Breastfeeding Duration Is Not Associated With Offspring Inflammatory Bowel Disease Risk in Three Population-Based Birth Cohorts.Clinical gastroenterology and hepatology : the official clinical practice journal of the American Gastroenterological Association · 2024
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4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

16 authors at 3 institutions in 1 country.

Benjamin P Kellman *Department of Pediatrics, University of California, San Diego, La Jolla, CA, 92093, USA.
Anne Richelle *Department of Pediatrics, University of California, San Diego, La Jolla, CA, 92093, USA.
Jeong-Yeh YangComplex Carbohydrate Research Center, University of Georgia, Athens, GA, USA.
Digantkumar ChaplaComplex Carbohydrate Research Center, University of Georgia, Athens, GA, USA.
Austin W T ChiangDepartment of Pediatrics, University of California, San Diego, La Jolla, CA, 92093, USA.ORCID 0000-0001-6514-5612
Julia A NajeraDepartment of Pediatrics, University of California, San Diego, La Jolla, CA, 92093, USA.
Chenguang LiangDepartment of Pediatrics, University of California, San Diego, La Jolla, CA, 92093, USA.
Annalee FürstDepartment of Pediatrics, University of California, San Diego, La Jolla, CA, 92093, USA.
Bokan BaoDepartment of Pediatrics, University of California, San Diego, La Jolla, CA, 92093, USA.ORCID 0000-0001-9860-909X
Natalia KogaDepartment of Pediatrics, University of California, San Diego, La Jolla, CA, 92093, USA.
Mahmoud A MohammadDepartment of Pediatrics, Children's Nutrition Research Center, US Department of Agriculture/Agricultural Research Service, Baylor College of Medicine, Houston, TX, 77030, USA.ORCID 0000-0002-6535-5529
Anders Bech BruntseDepartment of Pediatrics, University of California, San Diego, La Jolla, CA, 92093, USA.
Morey W HaymondDepartment of Pediatrics, Children's Nutrition Research Center, US Department of Agriculture/Agricultural Research Service, Baylor College of Medicine, Houston, TX, 77030, USA.
Kelley W MoremenComplex Carbohydrate Research Center, University of Georgia, Athens, GA, USA.ORCID 0000-0003-1768-582X
Lars BodeDepartment of Pediatrics, University of California, San Diego, La Jolla, CA, 92093, USA.
Nathan E LewisDepartment of Pediatrics, University of California, San Diego, La Jolla, CA, 92093, USA. nlewisres@ucsd.edu.ORCID 0000-0001-7700-3654
University of California San Diego · USUniversity of Georgia · USAgricultural Research Service · US

Funding

TR&D3. Approaches to Proteoglycan Function at Biochemical and Cellular LevelsP41GM103390 · NIGMS · UNIVERSITY OF GEORGIA · PI MOREMEN, KELLEY W. · 2012 to 2019
$14.5M
Recombinant Production of Glycosylation Enzymes for Biochem/Structural StudiesP01GM107012 · NIGMS · UNIVERSITY OF GEORGIA · PI MOREMEN, KELLEY · 2013 to 2017
$7.5M
Unraveling the mammalian secretory pathway through systems biology and algorithm developmentR35GM119850 · NIGMS · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI LEWIS, NATHAN ENOCH · 2016 to 2025
$4.3M
Origin of N-Glycan Site-Specific HeterogeneityR01GM130915 · NIGMS · UNIVERSITY OF GEORGIA · PI KANNAN, NATARAJAN, MOREMEN, KELLEY W. · 2019 to 2022
$3.4M
Exploring Oligosaccharide Synthesis in Human Mammary Gland Epithelial CellsR21HD080682 · NICHD · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI BODE, LARS · 2015 to 2016
$424k
NICHD NIH HHS R21 HD080682NIGMS NIH HHS P01 GM107012NIGMS NIH HHS P41 GM103390NIGMS NIH HHS R01 GM130915NIGMS NIH HHS R35 GM119850
6 · The paper itself

Abstract

Human Milk Oligosaccharides (HMOs) are abundant carbohydrates fundamental to infant health and development. Although these oligosaccharides were discovered more than half a century ago, their biosynthesis in the mammary gland remains largely uncharacterized. Here, we use a systems biology framework that integrates glycan and RNA expression data to construct an HMO biosynthetic network and predict glycosyltransferases involved. To accomplish this, we construct models describing the most likely pathways for the synthesis of the oligosaccharides accounting for >95% of the HMO content in human milk. Through our models, we propose candidate genes for elongation, branching, fucosylation, and sialylation of HMOs. Our model aggregation approach recovers 2 of 2 previously known gene-enzyme relations and 2 of 3 empirically confirmed gene-enzyme relations. The top genes we propose for the remaining 5 linkage reactions are consistent with previously published literature. These results provide the molecular basis of HMO biosynthesis necessary to guide progress in HMO research and application with the goal of understanding and improving infant health and development.

Indexed as

Milk, HumanOligosaccharidesGlycosyltransferasesHumansInfantGlycosyltransferasesOligosaccharides

Identifiers

PMID35508452
PMCPMC9068700
OpenAlexW4225373808

What OpenQuestion holds

Textmetadata
LicenceCC BY
Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.