Academic Journal
Characterization of urease active calcite-producing strain YX-3 combined with the whole genome.
| Title: | Characterization of urease active calcite-producing strain YX-3 combined with the whole genome. |
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| Authors: | Zhang S; College of Life Science, Northwest University, 229 Tai bai North Rd, Xi'an, Shaanxi, 710069, China; Shaanxi Provincial Key Laboratory of Biotechnology, Key Laboratory of Resources Biology and Biotechnology in Western China, Ministry of Education, College of Life Science, Northwest University, Xi'an, Shaanxi, 710069, China., Liu S; College of Life Science, Northwest University, 229 Tai bai North Rd, Xi'an, Shaanxi, 710069, China., Chen M; College of Life Science, Northwest University, 229 Tai bai North Rd, Xi'an, Shaanxi, 710069, China., Lu J; College of Life Science, Northwest University, 229 Tai bai North Rd, Xi'an, Shaanxi, 710069, China., Ma Y; College of Life Science, Northwest University, 229 Tai bai North Rd, Xi'an, Shaanxi, 710069, China; Shaanxi Provincial Key Laboratory of Biotechnology, Key Laboratory of Resources Biology and Biotechnology in Western China, Ministry of Education, College of Life Science, Northwest University, Xi'an, Shaanxi, 710069, China. Electronic address: mayanling@nwu.edu.cn. |
| Source: | Environmental research [Environ Res] 2024 Dec 01; Vol. 262 (Pt 1), pp. 119855. Date of Electronic Publication: 2024 Aug 27. |
| Publication Type: | Journal Article |
| Language: | English |
| Journal Info: | Publisher: Elsevier Country of Publication: Netherlands NLM ID: 0147621 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 1096-0953 (Electronic) Linking ISSN: 00139351 NLM ISO Abbreviation: Environ Res Subsets: MEDLINE |
| Imprint Name(s): | Publication: <2000- > : Amsterdam : Elsevier Original Publication: New York, Academic Press. |
| MeSH Terms: | Urease*/genetics , Urease*/metabolism , Urease*/chemistry , Calcium Carbonate*/metabolism , Calcium Carbonate*/chemistry, Nickel/metabolism ; Sporosarcina/enzymology ; Sporosarcina/genetics ; Molecular Docking Simulation ; Genome, Bacterial ; Molecular Dynamics Simulation |
| Abstract: | Urease found in a wide range of microorganisms plays a vital role in ureolytic induced calcite precipitation (UICP). However, the genomic information on urease-producing strains is limited, and there is a need for further in-depth studies on aspects such as the regulation of urease activity by nickel ligand residues. The present study delved into the elucidation of urease activity in a newly isolated strain YX-3 coupled with nickel-ligand residues by employing the genetic architecture of biomineralization-controlled growth, molecular docking, molecular dynamics simulation (MDS), and site-directed mutagenesis. Genome-wide sequencing showed the presence of urease gene clusters, comprising structural genes ureA, ureB, and ureC, alongside auxiliary genes ureD, ureE, ureF, and ureG. RT-qPCR analysis showed that the addition of NiCl (Copyright © 2024 Elsevier Inc. All rights reserved.) |
| Competing Interests: | Declaration of competing interest The authors declare that they have no known competing financial interests or personal relationships that could have appeared to influence the work reported in this paper. |
| Contributed Indexing: | Keywords: Genome analysis; MDS; Nickel ion; Site-directed mutagenesis; Sphingobacterium thalpophilum; Western blotting |
| Substance Nomenclature: | EC 3.5.1.5 (Urease) H0G9379FGK (Calcium Carbonate) 7OV03QG267 (Nickel) |
| SCR Organism: | Sporosarcina pasteurii |
| Entry Date(s): | Date Created: 20240829 Date Completed: 20241116 Latest Revision: 20241116 |
| Update Code: | 20260130 |
| DOI: | 10.1016/j.envres.2024.119855 |
| PMID: | 39208972 |
| Database: | MEDLINE |
| ISSN: | 1096-0953 |
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| DOI: | 10.1016/j.envres.2024.119855 |