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Cite: NAR/gkaa742 2020



PUL General Information

Literature Information

PUL ID

PUL0728

PubMed

38299857, J Bacteriol. 2024 Feb 22;206(2):e0033423. doi: 10.1128/jb.00334-23. Epub 2024 Feb 1.

Characterization method

HPAEC-PAD,SDS-PAGE,clone and expression

Genomic accession number

JABDHV010000033.1

Nucelotide position range

5144-33037

Substrate

human milk oligosaccharide

Loci

HHJ01_10845-HHJ01_10930

Species

Akkermansia muciniphila CSUN-19/239935

Degradation or Biosynthesis

degradation

Gene Name

Locus Tag

Protein ID

Gene Position

GenBank Contig Range

EC Number

- HHJ01_10845 MBT8796007.1 0 - 705 (-) JABDHV010000033.1:5144-5849 -
- HHJ01_10850 MBT8796008.1 735 - 1218 (-) JABDHV010000033.1:5879-6362 -
- HHJ01_10855 MBT8796009.1 1286 - 2102 (-) JABDHV010000033.1:6430-7246 -
- HHJ01_10860 MBT8796010.1 2226 - 3294 (+) JABDHV010000033.1:7370-8438 -
- HHJ01_10865 MBT8796011.1 3436 - 7237 (+) JABDHV010000033.1:8580-12381 -
- HHJ01_10870 MBT8796012.1 7585 - 8278 (-) JABDHV010000033.1:12729-13422 -
- HHJ01_10875 MBT8796013.1 8290 - 9295 (-) JABDHV010000033.1:13434-14439 -
- HHJ01_10880 MBT8796014.1 9405 - 10821 (-) JABDHV010000033.1:14549-15965 -
- HHJ01_10885 MBT8796015.1 11166 - 13524 (-) JABDHV010000033.1:16310-18668 -
- HHJ01_10890 MBT8796016.1 13405 - 14308 (-) JABDHV010000033.1:18549-19452 -
- HHJ01_10895 MBT8796017.1 14502 - 17181 (+) JABDHV010000033.1:19646-22325 -
- HHJ01_10900 MBT8796018.1 17200 - 17899 (+) JABDHV010000033.1:22344-23043 -
- HHJ01_10905 MBT8796019.1 18049 - 18829 (+) JABDHV010000033.1:23193-23973 -
kdpA HHJ01_10910 MBT8796020.1 18946 - 20647 (+) JABDHV010000033.1:24090-25791 -
kdpB HHJ01_10915 MBT8796021.1 20680 - 22792 (+) JABDHV010000033.1:25824-27936 -
kdpC HHJ01_10920 MBT8796022.1 22821 - 23388 (+) JABDHV010000033.1:27965-28532 -
- HHJ01_10925 MBT8796023.1 23537 - 25139 (-) JABDHV010000033.1:28681-30283 -
clpB HHJ01_10930 MBT8796024.1 25311 - 27894 (+) JABDHV010000033.1:30455-33038 -

Cluster number

1

Gene name

Gene position

Gene type

Found by CGCFinder?

- 1 - 705 (-) CDS No
- 736 - 1218 (-) CAZyme: CBM50 Yes
- 1287 - 2102 (-) other Yes
- 2227 - 3294 (+) other Yes
- 3437 - 7237 (+) CAZyme: GH2|CBM32 Yes
- 7586 - 8278 (-) other Yes
- 8291 - 9295 (-) other Yes
- 9406 - 10821 (-) CAZyme: GH29 Yes
- 11167 - 13524 (-) CAZyme: GH33 Yes
- 13406 - 14308 (-) other Yes
- 14503 - 17181 (+) STP: STP|HisKA,STP|HATPase_c Yes
- 17201 - 17899 (+) TF: DBD-Pfam|Trans_reg_C Yes
- 18050 - 18829 (+) TC: gnl|TC-DB|B2UQC7|1.B.71.1.5 Yes
kdpA 18947 - 20647 (+) TC: gnl|TC-DB|Q1M605|3.A.3.7.2 Yes
kdpB 20681 - 22792 (+) TC: gnl|TC-DB|Q1M606|3.A.3.7.2 Yes
kdpC 22822 - 23388 (+) TC: gnl|TC-DB|Q1M607|3.A.3.7.2 Yes
- 23538 - 25139 (-) CAZyme: GH27 Yes
clpB 25312 - 27894 (+) TC: gnl|TC-DB|Q9SXJ7|3.A.9.1.2 Yes

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PUL ID

PUL0728

PubMed

38299857, J Bacteriol. 2024 Feb 22;206(2):e0033423. doi: 10.1128/jb.00334-23. Epub 2024 Feb 1.

Title

Mechanism of 2'-fucosyllactose degradation by human-associated Akkermansia.

Author

Padilla L, Fricker AD, Luna E, Choudhury B, Hughes ER, Panzetta ME, Valdivia RH, Flores GE

Abstract

Among the first microorganisms to colonize the human gut of breastfed infants are bacteria capable of fermenting human milk oligosaccharides (HMOs). One of the most abundant HMOs, 2'-fucosyllactose (2'-FL), may specifically drive bacterial colonization of the intestine. Recently, differential growth has been observed across multiple species of Akkermansia on various HMOs including 2'-FL. In culture, we found growth of two species, A. muciniphila Muc(T) and A. biwaensis CSUN-19,on HMOs corresponded to a decrease in the levels of 2'-FL and an increase in lactose, indicating that the first step in 2'-FL catabolism is the cleavage of fucose. Using phylogenetic analysis and transcriptional profiling, we found that the number and expression of fucosidase genes from two glycoside hydrolase (GH) families, GH29 and GH95, vary between these two species. During the mid-log phase of growth, the expression of several GH29 genes was increased by 2'-FL in both species, whereas the GH95 genes were induced only in A. muciniphila. We further show that one putative fucosidase and a beta-galactosidase from A. biwaensis are involved in the breakdown of 2'-FL. Our findings indicate that the plasticity of GHs of human-associated Akkermansia sp. enables access to additional growth substrates present in HMOs, including 2'-FL. Our work highlights the potential for Akkermansia to influence the development of the gut microbiota early in life and expands the known metabolic capabilities of this important human symbiont.IMPORTANCEAkkermansia are mucin-degrading specialists widely distributed in the human population. Akkermansia biwaensis has recently been observed to have enhanced growth relative to other human-associated Akkermansia on multiple human milk oligosaccharides (HMOs). However, the mechanisms for enhanced growth are not understood. Here, we characterized the phylogenetic diversity and function of select genes involved in the growth of A. biwaensis on 2'-fucosyllactose (2'-FL), a dominant HMO. Specifically, we demonstrate that two genes in a genomic locus, a putative beta-galactosidase and alpha-fucosidase, are likely responsible for the enhanced growth on 2'-FL. The functional characterization of A. biwaensis growth on 2'-FL delineates the significance of a single genomic locus that may facilitate enhanced colonization and functional activity of select Akkermansia early in life.