The GRAS gene family in watermelons: identification, characterization and expression analysis of different tissues and root-knot nematode infestations.

PeerJ
Gongbo LvBin He

Abstract

The family of GRAS plant-specific transcription factor plays diverse roles in numerous biological processes. Despite the identification and characterization of GRAS genes family in dozens of plant species, until now, GRAS members in watermelon (Citrullus lanatus) have not been investigated comprehensively. In this study, using bioinformatic analysis, we identified 37 GRAS genes in the watermelon genome (ClGRAS). These genes are classified into 10 distinct subfamilies based on previous research, and unevenly distributed on 11 chromosomes. Furthermore, a complete analysis was conducted to characterize conserved motifs and gene structures, which revealed the members within same subfamily that have analogous conserved gene structure and motif composition. Additionally, the expression pattern of ClGRAS genes was characterized in fruit flesh and rind tissues during watermelon fruit development and under red light (RL) as well as root knot nematode infestation. Finally, for verification of the availability of public transcriptome data, we also evaluated the expression levels of randomly selected four ClGRAS genes under RL and nematode infection by using qRT-PCR. The qRT-PCR results indicated that several ClGRAS genes were differential...Continue Reading

References

Sep 1, 1997·Nucleic Acids Research·S F AltschulD J Lipman
Dec 24, 1998·Nucleic Acids Research·S AubourgA Lecharny
May 26, 1999·The Plant Journal : for Cell and Molecular Biology·L D PyshP N Benfey
Jun 8, 2000·BioEssays : News and Reviews in Molecular, Cellular and Developmental Biology·D E RichardsN P Harberd
Feb 16, 2002·Methods : a Companion to Methods in Enzymology·K J Livak, T D Schmittgen
May 16, 2002·The Journal of Heredity·R E Voorrips
May 16, 2002·Plant Physiology·Peter Michael ChandlerFrank Gubler
Feb 6, 2003·Genes & Development·Sabrina SabatiniBen Scheres
Mar 27, 2003·The Journal of Biological Chemistry·Kengo MorohashiKazuyuki Hiratsuka
Aug 19, 2004·Plant Molecular Biology·Chaoguang TianMingsheng Chen
Feb 18, 2009·The Plant Journal : for Cell and Molecular Biology·Hongning TongChengcai Chu
May 8, 2009·Plant Physiology·Shree P Pandey, Imre E Somssich
May 22, 2009·Nucleic Acids Research·Timothy L BaileyWilliam S Noble
Aug 26, 2009·Plant Signaling & Behavior·Urszula Piskurewicz, Luis Lopez-Molina
Oct 13, 2009·Plant Signaling & Behavior·Sibylle Hirsch, Giles E D Oldroyd
Mar 26, 2010·Automated Experimentation·Karthik Raman
Nov 13, 2010·The Plant Journal : for Cell and Molecular Biology·Silke SchulzeKlaus Theres
Dec 15, 2010·Developmental Cell·Xingliang HouHao Yu
Jan 20, 2011·Proceedings of the National Academy of Sciences of the United States of America·Jung-Ok HeoJun Lim
Jan 20, 2011·Proceedings of the National Academy of Sciences of the United States of America·Zhong-Lin ZhangTai-ping Sun
Mar 11, 2011·BMC Physiology·Marissa K TrenerryDavid Cameron-Smith
May 31, 2011·Trends in Biochemical Sciences·Monika FuxreiterSarah Bondos
Aug 24, 2011·Comparative and Functional Genomics·Ming ZouShunping He
Jan 28, 2012·The Biochemical Journal·Xiaolin SunErik H A Rikkerink
Aug 3, 2012·The Journal of Neuroscience : the Official Journal of the Society for Neuroscience·Jin LiangShawn M Burgess
Apr 12, 2013·International Journal of Molecular Sciences·Murilo S AlvesLuciano G Fietto
May 9, 2013·Journal of Integrative Plant Biology·Lianjun SunChuanqing Sun
Jul 3, 2013·Molecular Plant Pathology·John T JonesRoland N Perry

❮ Previous
Next ❯

Software Mentioned

TopHat
R package
ExPASy
MapChart
LocTree3 PSORT
FigTree
MEME
GSDS
LOGO
MEGA X

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.