Bacillus velezensis LG37: transcriptome profiling and functional verification of GlnK and MnrA in ammonia assimilation

BMC Genomics
Guangxin LiuLi Lin

Abstract

In recent years, interest in Bacillus velezensis has increased significantly due to its role in many industrial water bioremediation processes. In this study, we isolated and assessed the transcriptome of Bacillus velezensis LG37 (from an aquaculture pond) under different nitrogen sources. Since Bacillus species exhibit heterogeneity, it is worth investigating the molecular mechanism of LG37 through ammonia nitrogen assimilation, where nitrogen in the form of molecular ammonia is considered toxic to aquatic organisms. Here, a total of 812 differentially expressed genes (DEGs) from the transcriptomic sequencing of LG37 grown in minimal medium supplemented with ammonia (treatment) or glutamine (control) were obtained, from which 56 had Fold Change ≥2. BLAST-NCBI and UniProt databases revealed 27 out of the 56 DEGs were potentially involved in NH4+ assimilation. Among them, 8 DEGs together with the two-component regulatory system GlnK/GlnL were randomly selected for validation by quantitative real-time RT-PCR, and the results showed that expression of all the 8 DEGs are consistent with the RNA-seq data. Moreover, the transcriptome and relative expression analysis were consistent with the transporter gene amtB and it is not involve...Continue Reading

References

Aug 20, 1996·Proceedings of the National Academy of Sciences of the United States of America·L V WrayS H Fisher
Apr 8, 1998·Microbiology and Molecular Biology Reviews : MMBR·S S PaoM H Saier
Dec 30, 1998·Trends in Biochemical Sciences·A R WalmsleyG W Gould
Jun 8, 2000·Current Topics in Cellular Regulation·A J NinfaJ A Peliska
Jun 23, 2000·Journal of Molecular Biology·L V WrayS H Fisher
Feb 16, 2002·Methods : a Companion to Methods in Enzymology·K J Livak, T D Schmittgen
Sep 10, 2002·Journal of Bacteriology·Mariette R AtkinsonAlexander J Ninfa
Aug 19, 2004·Journal of Comparative Physiology. B, Biochemical, Systemic, and Environmental Physiology·Y K IpD J Randall
Jul 18, 2006·Nucleic Acids Research·Jia YeJun Wang
Dec 26, 2006·BioEssays : News and Reviews in Molecular, Cellular and Developmental Biology·Dongsan KimKwang-Hyun Cho
Feb 20, 2007·Water Science and Technology : a Journal of the International Association on Water Pollution Research·S U KimJ S Cho
Dec 14, 2007·Nucleic Acids Research·Minoru KanehisaYoshihiro Yamanishi
Jun 3, 2008·Nature Methods·Ali MortazaviBarbara Wold
May 20, 2009·Bioinformatics·Heng Li, Richard Durbin
May 18, 2010·Applied Microbiology and Biotechnology·Xiangyang LiuLixin Zhang
Dec 18, 2014·Genome Biology·Michael I LoveSimon Anders
Jun 4, 2015·Current Opinion in Plant Biology·Anne Krapp
Jun 28, 2016·Applied and Environmental Microbiology·Josef Altenbuchner
Jul 21, 2017·Antonie van Leeuwenhoek·Yihua SunAnne Willems

❮ Previous
Next ❯

Citations

Jul 3, 2021·International Journal of Molecular Sciences·Ting YangLiang Zhang

❮ Previous
Next ❯

Datasets Mentioned

BETA
CP023341.1

Methods Mentioned

BETA
Illumina sequencing
PCR
RNA-seq

Software Mentioned

BLAST
Primer
Origin
statistical package for social sciences ( SPSS
Rockhooper2
DESeq R package

Related Concepts

Trending Feeds

COVID-19

Coronaviruses encompass a large family of viruses that cause the common cold as well as more serious diseases, such as the ongoing outbreak of coronavirus disease 2019 (COVID-19; formally known as 2019-nCoV). Coronaviruses can spread from animals to humans; symptoms include fever, cough, shortness of breath, and breathing difficulties; in more severe cases, infection can lead to death. This feed covers recent research on COVID-19.

Blastomycosis

Blastomycosis fungal infections spread through inhaling Blastomyces dermatitidis spores. Discover the latest research on blastomycosis fungal infections here.

Nuclear Pore Complex in ALS/FTD

Alterations in nucleocytoplasmic transport, controlled by the nuclear pore complex, may be involved in the pathomechanism underlying multiple neurodegenerative diseases including Amyotrophic Lateral Sclerosis and Frontotemporal Dementia. Here is the latest research on the nuclear pore complex in ALS and FTD.

Applications of Molecular Barcoding

The concept of molecular barcoding is that each original DNA or RNA molecule is attached to a unique sequence barcode. Sequence reads having different barcodes represent different original molecules, while sequence reads having the same barcode are results of PCR duplication from one original molecule. Discover the latest research on molecular barcoding here.

Chronic Fatigue Syndrome

Chronic fatigue syndrome is a disease characterized by unexplained disabling fatigue; the pathology of which is incompletely understood. Discover the latest research on chronic fatigue syndrome here.

Evolution of Pluripotency

Pluripotency refers to the ability of a cell to develop into three primary germ cell layers of the embryo. This feed focuses on the mechanisms that underlie the evolution of pluripotency. Here is the latest research.

Position Effect Variegation

Position Effect Variagation occurs when a gene is inactivated due to its positioning near heterochromatic regions within a chromosome. Discover the latest research on Position Effect Variagation here.

STING Receptor Agonists

Stimulator of IFN genes (STING) are a group of transmembrane proteins that are involved in the induction of type I interferon that is important in the innate immune response. The stimulation of STING has been an active area of research in the treatment of cancer and infectious diseases. Here is the latest research on STING receptor agonists.

Microbicide

Microbicides are products that can be applied to vaginal or rectal mucosal surfaces with the goal of preventing, or at least significantly reducing, the transmission of sexually transmitted infections. Here is the latest research on microbicides.