MANET database

The Molecular Ancestry Network (MANET) database is a bioinformatics database that maps
evolutionary relationships of protein architectures directly onto biological networks.[1] It was originally
developed by Hee Shin Kim, Jay E. Mittenthal and Gustavo Caetano-Anolles in the Department of Crop
Sciences of the University of Illinois at Urbana-Champaign.[2]

MANET traces for example the ancestry of individual metabolic enzymes in metabolism with
bioinformatic, phylogenetic, and statistical methods. MANET currently links information in the Structural
Classification of Proteins (SCOP) database, the metabolic pathways database of the Kyoto Encyclopedia of
Genes and Genomes (KEGG), and phylogenetic reconstructions describing the evolution of protein fold
architecture at a universal level.[3] The database has been updated to reflect evolution of metabolism at the
level of protein fold families.[4] MANET literally "paints" the ancestries of enzymes derived from rooted
phylogenetic trees directly onto over one hundred metabolic pathways representations, paying homage to
one of the fathers of impressionism. It also provides numerous functionalities that enable searching specific
protein folds with defined ancestry values, displaying the distribution of enzymes that are painted, and
exploring quantitative details describing individual protein folds. This permits the study of global and local
metabolic network architectures, and the extraction of evolutionary patterns at global and local levels.

A statistical analysis of the data in MANET showed for example a patchy distribution of ancestry values
assigned to protein folds in each subnetwork, indicating that evolution of metabolism occurred globally by
widespread recruitment of enzymes.[2] MANET was used recently to sort out enzymatic recruitment
processes in metabolic networks and propose that modern metabolism originated in the purine nucleotide
metabolic subnetwork.[5] The database is useful for the study of metabolic evolution.

External links
Molecular Ancestry Network (MANET) database (https://web.archive.org/web/20170709151
121/http://www.manet.uiuc.edu/)

References
1. "Molecular Ancestry Network, University of Illinois" (https://web.archive.org/web/201707091
51121/http://www.manet.uiuc.edu/). www.manet.uiuc.edu. Archived from the original (http://w
ww.manet.uiuc.edu/) on 9 July 2017. Retrieved 14 January 2022.
2. Kim HS, Mittenthal JE, Caetano-Anolles G (2006). "MANET:tracing evolution of protein
architecture in metabolic networks" (https://www.ncbi.nlm.nih.gov/pmc/articles/PMC155965
4). BMC Bioinformatics. 7: 351. doi:10.1186/1471-2105-7-351 (https://doi.org/10.1186%2F14
71-2105-7-351). PMC 1559654 (https://www.ncbi.nlm.nih.gov/pmc/articles/PMC1559654).
PMID 16854231 (https://pubmed.ncbi.nlm.nih.gov/16854231).
3. Caetano-Anolles G, Caetano-Anolles D (2003). "An evolutionarily structured universe of
protein architecture" (https://www.ncbi.nlm.nih.gov/pmc/articles/PMC403752). Genome Res.
13 (7): 1563–71. doi:10.1101/gr.1161903 (https://doi.org/10.1101%2Fgr.1161903).
PMC 403752 (https://www.ncbi.nlm.nih.gov/pmc/articles/PMC403752). PMID 12840035 (http
s://pubmed.ncbi.nlm.nih.gov/12840035).
 4. Mughal F, Caetano-Anolles G (2019). "MANET 3.0: Hierarchy and modularity in evolving
metabolic networks" (https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6812854). PLOS ONE.
14 (10): e0224201. Bibcode:2019PLoSO..1424201M (https://ui.adsabs.harvard.edu/abs/201
9PLoSO..1424201M). doi:10.1371/journal.pone.0224201 (https://doi.org/10.1371%2Fjourna
l.pone.0224201). PMC 6812854 (https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6812854).
PMID 31648227 (https://pubmed.ncbi.nlm.nih.gov/31648227).
5. Caetano-Anolles G, Kim HS, Mittenthal JE (2007). "The origin of modern metabolic networks
inferred from phylogenomic analysis of protein architecture" (https://www.ncbi.nlm.nih.gov/p
mc/articles/PMC1890499). Proc Natl Acad Sci USA. 104 (22): 9358–63.
Bibcode:2007PNAS..104.9358C (https://ui.adsabs.harvard.edu/abs/2007PNAS..104.9358
C). doi:10.1073/pnas.0701214104 (https://doi.org/10.1073%2Fpnas.0701214104).
PMC 1890499 (https://www.ncbi.nlm.nih.gov/pmc/articles/PMC1890499). PMID 17517598
(https://pubmed.ncbi.nlm.nih.gov/17517598).

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