Genomics and Applied Biology 2018, Vol.9, No.5, 24-31
24
Research Article Open Access
Genome-Wide Identification and Analysis of
TRK
Gene Family in
Aspergillus
niger
Haoran Li, Lanlan Liu, Jing Dai, Yihan Zhang, Fei Chen, Jizhong Han, Jianwen Hu, Bin Zeng , Bin He
Jiangxi Province Key Laboratory of Bioprocess Engineering, School of Life Science, Jiangxi Science & Technology Normal University, Nanchang, 300023
，
China
Corresponding author email
Genomics and Applied Biology, 2018, Vol.9, No.5 doi
Received: 15 May, 2018
Accepted: 22 Jun., 2018
Published: 13 Jul., 2018
Copyright © 2018
Li et al., This is an open access article published under the terms of the Creative Commons Attribution License, which permits
unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.
Preferred citation for this article
:
Li H.R., Liu L.L., Dai J., Zhang Y.H., Chen F., Han J.Z., Hu J.W., Zeng B., and He B., 2018, Genome-wide identification and analysis of
TRK
gene family
in
Aspergillus niger
, Genomics and Applied Biology, 9(5): 24-31 (doi
Abstract
TRK
gene is related to potassium uptake and transport, which plays an important role in regulating the life activity of
living organisms. Based on
Aspergillus niger
genome database, using bioinformatic method predicted the members of
TRK
gene
family, gene structure and phylogenetic relationships of
Aspergillus nig
er. The phylogenetic tree was constructed using MEGA 6.0.6
software with Maximum Likelihood Tree method. Using PAL2NAL software estimated da/ds. The structure of the genes was
analyzed by GSDS 2.0 software. The motif was analyzed by MEME program. Four members of
TRK
gene family in the genome of
Aspergillus niger
were identified, which were
AnTrk1
,
AnTrk2
,
AnTrk3
and
AnTrk4
, respectively. Both the
TRK
feature domain and
the conserved motif were found. The structure of different genes was different, but the structure of cluster was similar.
TRK
gene
family members of
Aspergillus niger
in the genetic structure and other aspects of existed significant differences with the yeast.
Genetic relationships and protein interaction network analysis have further verified this conclusion. Therefore, it can infer that
TRK
gene of
Aspergillus niger
has other regulation pathways. This conclusion could provide the basis for further research on the function
and mechanism of
TRK
osmotic stress related protein, so as to lay a foundation for understanding the mechanism of the osmotic
adjustment of
Aspergillus niger
.
Keywords
Aspergillus niger
;
TRK
gene family; Whole genome; Protein-protein interaction
Background
Potassium is a nutrient element essential to every living organism. Potassium ions play an important role in
regulating the osmotic pressure balance and ion balance in plant cells, maintaining the stability of the internal
environment (Wu, 2003; Yin et al., 2006). In bacteria and eukaryotic cells, potassium is is an essential monovalent
cation in living cells, which was an important component of the osmotic pressure of cells. It plays a crucial role in
physiological processes, such as regulating osmotic pressure, regulating intracellular pH, various enzymes,
membrane potential, transmission signals, and the so on (Epstein et al., 2003; Herrera et al., 2014). In order to
ensure the normal operation of various metabolic activities in cells, Trk-like potassium absorption and
translocation systems are prevalent in most prokaryotic, archaeal, eukaryotic, and filamentous fungi to maintain a
relatively stable intracellular potassium concentration (Feng et al., 2009).
In recent years, studies on
Trk
genes have been reported in prokaryotic and eukaryotic microorganisms. In
prokaryotic microorganisms, most bacteria usually suffered from a relatively complex growth environment, and a
rapid and effective response to the range of external potassium ion mutations was necessary. Therefore, it is very
important for the
Trk
gene family to regulate the potassium concentration. The
Trk
system has been reported in the
prokaryotic microorganisms, such as
Salmonella
(Su et al., 2008),
Escherichia coli
(Schlösser et al., 1991; Harms
et al., 2001),
salinophilia
(Guo et al., 2009),
Vibrio parahaemolyticus
(Cao et al., 2013),
Vibrio alginolyticus
(Nakamura et al., 1998a; 1998b),
Vibrio vulnificus
(Chen et al., 2004), and
monosomonas long Halomona
s
(Kraegeloh et al., 2005; Kunte et al., 2005). Among of these, the
Trk
system of
Escherichia coli
is the most
studied. By constructing
E. coli
mutants, the researchers found that
Ec-TrkA
can bind to NAD
+
to regulate the K
+
uptake activity of
TrkH
or
TrkG
, instead of the previously expected ATP. It was also found that the K
+
uptake
function of the cells did not change significantly regardless of the destruction of any protein in
TrkH
or
TrkG
. The
