Molecular Basis Of Interaction Research Articles

The caspase family: molecular bases of interaction in apoptosis and pyroptosis

Both apoptotic and inflammatory caspases play a significant role in developing and maintaining an organism’s homeostasis. Recently, various studies have described various cross-interactions among various caspases. For instance, interleukin-1β activation is initiated by caspase-1 and caspase-8. Programmed cell death is launched not exclusively by internal and external factors to serve as a foundation for physiological development and realization of cellular and organism functions. The caspases involved in this process provide a complicated function related to cell homeostasis regulation. Caspases also participate in adaptation processes associated with changing environmental conditions, including microgravity.
 Phenotypical analysis of knockdown laboratory animals can reveal the physiological functions of caspases, giving preference to mice. For instance, this approach allows us to determine the role of caspases in the pathogenesis of different pathologic conditions, such as malignancies and autoimmune and infectious diseases. Caspases are considered by a wide spectrum of authors as therapeutic targets.
 In general, the topic of caspases and their functions is very broad. In this review, we only discuss some aspects of the impact of caspases on various types of cell death.

Molecular basis of interactions between CaMKII and α-actinin-2 that underlie dendritic spine enlargement.

Ca2+/calmodulin-dependent protein kinase II (CaMKII) is essential for long-term potentiation (LTP) of excitatory synapses that is linked to learning and memory. In this study, we focused on understanding how interactions between CaMKIIα and the actin-crosslinking protein α-actinin-2 underlie long-lasting changes in dendritic spine architecture. We found that association of the two proteins was unexpectedly elevated within 2 minutes of NMDA receptor stimulation that triggers structural LTP in primary hippocampal neurons. Furthermore, disruption of interactions between the two proteins prevented the accumulation of enlarged mushroom-type dendritic spines following NMDA receptor activation. α-Actinin-2 binds to the regulatory segment of CaMKII. Calorimetry experiments, and a crystal structure of α-actinin-2 EF hands 3 and 4 in complex with the CaMKII regulatory segment, indicate that the regulatory segment of autoinhibited CaMKII is not fully accessible to α-actinin-2. Pull-down experiments show that occupation of the CaMKII substrate-binding groove by GluN2B markedly increases α-actinin-2 access to the CaMKII regulatory segment. Furthermore, in situ labelling experiments are consistent with the notion that recruitment of CaMKII to NMDA receptors contributes to elevated interactions between the kinase and α-actinin-2 during structural LTP. Overall, our study provides new mechanistic insight into the molecular basis of structural LTP and reveals an added layer of sophistication to the function of CaMKII.

Interactions and rheology of guar gum–mucin mixtures

This work studies the molecular interactions of guar gum, one of the major hydrocolloids, with mucin as to understand guar gum's behavior and functionality upon consumption. Guar gum, mucin, and their binary mixtures were studied at different pH values. The phase stability and particle size distributions were recorded over a pH range of 1–7, and at a range of guar gum to mucin ratios. Aggregations leading to phase separations are more pronounced at low pH, especially when mucin is involved. The effect of electrostatic repulsions on phase stability as function of pH is discussed. The shear viscosity of these systems is dominated by the presence of guar gum, with few, if any, apparent synergies with mucin. The image changes in extensional viscosity, where strong negative synergies are encountered when mucin co-exists with guar gum. Taking into account the intrinsic viscosity and existing thermodynamic data, these synergies are attributed to transient steric interactions. The different effect of mucin on the shear and extensional rheologies of guar gum are discussed on the basis of molecular interactions. The discussion highlights the potentially important implications in the behavior of these systems during oral and other processes. • The interactions between guar gum and mucin are studied. • Phase separations and particle sizes are mapped for a range of pH values. • Shear rheology is dominated by the presence of guar gum. • The presence of mucin strongly affects the extensional rheology of guar gum. • Synergies and antagonisms in rheology are attributed to intermolecular interactions.

Harnessing genetic resistance to rusts in wheat and integrated rust management methods to develop more durable resistant cultivars.

Wheat is one of the most important staple foods on earth. Leaf rust, stem rust and stripe rust, caused by Puccini triticina, Puccinia f. sp. graminis and Puccinia f. sp. striiformis, respectively, continue to threaten wheat production worldwide. Utilization of resistant cultivars is the most effective and chemical-free strategy to control rust diseases. Convectional and molecular biology techniques identified more than 200 resistance genes and their associated markers from common wheat and wheat wild relatives, which can be used by breeders in resistance breeding programmes. However, there is continuous emergence of new races of rust pathogens with novel degrees of virulence, thus rendering wheat resistance genes ineffective. An integration of genomic selection, genome editing, molecular breeding and marker-assisted selection, and phenotypic evaluations is required in developing high quality wheat varieties with resistance to multiple pathogens. Although host genotype resistance and application of fungicides are the most generally utilized approaches for controlling wheat rusts, effective agronomic methods are required to reduce disease management costs and increase wheat production sustainability. This review gives a critical overview of the current knowledge of rust resistance, particularly race-specific and non-race specific resistance, the role of pathogenesis-related proteins, non-coding RNAs, and transcription factors in rust resistance, and the molecular basis of interactions between wheat and rust pathogens. It will also discuss the new advances on how integrated rust management methods can assist in developing more durable resistant cultivars in these pathosystems.

Molecular basis for interactions between protists and other organisms: How protists recognize and capture prey cells

Molecular basis for interactions between protists and other organisms: How protists recognize and capture prey cells

Systematic identification of molecular mediators of interspecies sensing in a community of two frequently coinfecting bacterial pathogens

Bacteria typically exist in dynamic, multispecies communities where polymicrobial interactions influence fitness. Elucidating the molecular mechanisms underlying these interactions is critical for understanding and modulating bacterial behavior in natural environments. While bacterial responses to foreign species are frequently characterized at the molecular and phenotypic level, the exogenous molecules that elicit these responses are understudied. Here, we outline a systematic strategy based on transcriptomics combined with genetic and biochemical screens of promoter-reporters to identify the molecules from one species that are sensed by another. We utilized this method to study interactions between the pathogens Pseudomonas aeruginosa and Staphylococcus aureus that are frequently found in coinfections. We discovered that P. aeruginosa senses diverse staphylococcal exoproducts including the metallophore staphylopine (StP), intermediate metabolites citrate and acetoin, and multiple molecules that modulate its iron starvation response. We observed that StP inhibits biofilm formation and that P. aeruginosa can utilize citrate and acetoin for growth, revealing that these interactions have both antagonistic and beneficial effects. Due to the unbiased nature of our approach, we also identified on a genome scale the genes in S. aureus that affect production of each sensed exoproduct, providing possible targets to modify multispecies community dynamics. Further, a combination of these identified S. aureus products recapitulated a majority of the transcriptional response of P. aeruginosa to S. aureus supernatant, validating our screening strategy. Cystic fibrosis (CF) clinical isolates of both S. aureus and P. aeruginosa also showed varying degrees of induction or responses, respectively, which suggests that these interactions are widespread among pathogenic strains. Our screening approach thus identified multiple S. aureus secreted molecules that are sensed by P. aeruginosa and affect its physiology, demonstrating the efficacy of this approach, and yielding new insight into the molecular basis of interactions between these two species.

Stem cell-derived porcine macrophages as a new platform for studying host-pathogen interactions

BackgroundInfectious diseases of farmed and wild animals pose a recurrent threat to food security and human health. The macrophage, a key component of the innate immune system, is the first line of defence against many infectious agents and plays a major role in shaping the adaptive immune response. However, this phagocyte is a target and host for many pathogens. Understanding the molecular basis of interactions between macrophages and pathogens is therefore crucial for the development of effective strategies to combat important infectious diseases.ResultsWe explored how porcine pluripotent stem cells (PSCs) can provide a limitless in vitro supply of genetically and experimentally tractable macrophages. Porcine PSC-derived macrophages (PSCdMs) exhibited molecular and functional characteristics of ex vivo primary macrophages and were productively infected by pig pathogens, including porcine reproductive and respiratory syndrome virus (PRRSV) and African swine fever virus (ASFV), two of the most economically important and devastating viruses in pig farming. Moreover, porcine PSCdMs were readily amenable to genetic modification by CRISPR/Cas9 gene editing applied either in parental stem cells or directly in the macrophages by lentiviral vector transduction.ConclusionsWe show that porcine PSCdMs exhibit key macrophage characteristics, including infection by a range of commercially relevant pig pathogens. In addition, genetic engineering of PSCs and PSCdMs affords new opportunities for functional analysis of macrophage biology in an important livestock species. PSCs and differentiated derivatives should therefore represent a useful and ethical experimental platform to investigate the genetic and molecular basis of host-pathogen interactions in pigs, and also have wider applications in livestock.

Ultrasonic velocities and refractive indies of binary liquid mixtures of 1, 4-dioxane with 1 – alkanols (C3, C4, C6 , C8 ) at 303.15 K

Density (ρ), ultrasonic velocities (u) and refractive indices (n) of the binary mixture between cyclic ether with 1-propanol, 1-butanol, 1-hexanol, 1-octanol for the entire concentration range have been measured at 303.15K, furthermore, deviation in refractive indies from ideal mixture, molar refraction, deviation in molar refraction from ideal values for these mixture has also been evaluated. The deviations from ideality of the acoustical parameters are explained on the basis of molecular interaction between the component molecules in these binary liquid mixtures. The molecular refraction (Rm), excess molecular refraction ( ) and excess molar volume (VE) were calculated from the experimental data. The results are discussed in term of molecular interactions between the components of the binary mixtures.  Â

Novel Approaches in the Immunotherapy of Multiple Sclerosis: Cyclization of Myelin Epitope Peptides and Conjugation with Mannan.

Multiple Sclerosis (MS) is a serious autoimmune disease. The patient in an advanced state of the disease has restrained mobility and remains handicapped. It is therefore understandable that there is a great need for novel drugs and vaccines for the treatment of MS. Herein we summarise two major approaches applied for the treatment of the disease using peptide molecules alone or conjugated with mannan. The first approach focuses on selective myelin epitope peptide or peptide mimetic therapy alone or conjugated with mannan, and the second on immune-therapy by preventing or controlling disease through the release of appropriate cytokines. In both approaches the use of cyclic peptides offers the advantage of increased stability from proteolytic enzymes. In these approaches, the synthesis of myelin epitope peptides conjugated to mannan is of particular interest as this was found to protect mice against experimental autoimmune encephalomyelitis, an animal model of MS, in prophylactic and therapeutic protocols. Protection was peptide-specific and associated with reduced antigen-specific T cell proliferation. The aim of the studies of these peptide epitope analogs is to understand their molecular basis of interactions with human autoimmune T-cell receptor and a MS-associated human leucocyte antigen (HLA)-DR2b. This knowledge will lead the rational design to new beneficial non-peptide mimetic analogs for the treatment of MS. Some issues of the use of nanotechnology will also be addressed as a future trend to tackle the disease. We highlight novel immunomodulation and vaccine-based research against MS based on myelin epitope peptides and strategies developed in our laboratories.

Molecular Basis of Interactions between the Antibiotic Nitrofurantoin and Human Serum Albumin: A Mechanism for the Rapid Drug Blood Transportation.

Nitrofurantoin is an antimicrobial agent obtained through the addition of a nitro group and a side chain containing hydantoin to a furan ring. The interactions of the antibiotic with human serum albumin (HSA) have been investigated by fluorescence, UV-VIS, Fourier transform infrared spectroscopy (FTIR) spectroscopy, and protein-ligand docking studies. The fluorescence studies indicate that the binding site of the additive involves modifications of the environment around Trp214 at the level of subdomain IIA. Fluorescence and UV-VIS spectroscopy, displacement studies, and FTIR experiments show the association mode of nitrofurantoin to HSA, suggesting that the primary binding site of the antibiotic is located in Sudlow’s site I. Molecular modeling suggests that nitrofurantoin is involved in the formation of hydrogen bonds with Trp214, Arg218, and Ser454, and is located in the hydrophobic cavity of subdomain IIA. Moreover, the curve-fitting results of the infrared Amide I’ band indicate that the binding of nitrofurantoin induces little change in the protein secondary structure. Overall, these data clarify the blood transportation process of nitrofurantoin and its rapid transfer to the kidney for its elimination, hence leading to a better understanding of its biological effects and being able to design other molecules, based on nitrofurantoin, with a higher biological potential.

Catalysis with Earth-abundant Elements (Catalysis Series)

The continuous growing demand for nanoscience applications and the improvement in the performance of liquid crystal based devices has been extensively required by the technological world. Recent progress in the field of liquid crystals has found its practical implementation in various display and non display devices which experiences obstacle due to impurity effects that reduces its performance. The dispersion of nanoparticles in liquid crystal medium helps in the reduction of impurity ions and thus improving the performance of liquid crystal based devices. The present work is based on the collective dielectric relaxation processes that have been observed in antiferroelectric liquid crystal (AFLC) mixture W1000 dispersed with 0.1% wt/wt and 0.3% wt/wt concentrations of graphene oxide. Graphene oxide itself favors vertical alignment and the coupling of AFLC W1000 mixture with graphene oxide affects its molecular ordering. This has been confirmed from the polarizing optical micrographs. The dielectric relaxation modes have been observed with and without the application of bias voltage in SmC* to SmCA* phase transition during cooling cycle. The appearance and disappearance of PL, PH and X modes have been observed and are explained on the basis of molecular interactions. Graphene oxide dispersed system favors homeotropic alignment (dark state) and the application of bias field will convert it into homogenous alignment (bright state). Graphene oxide dispersion find prospective applications in good contrast display devices, supercapacitors, electronic gadgets, rechargeable batteries. Electro optical results unveil the faster response time, decreased rotational viscosity and spontaneous polarization with no change in tilt angle for the dispersed system. These observations can be exploited in photonic switches with sub millisecond response time which are required for fabricating faster liquid crystal devices.

Understanding the biological role of PqqB in Pseudomonas stutzeri using molecular dynamics simulation approach

Phosphate solubilization is an important and widely studied plant growth promoting trait exhibited by many bacteria. Pyrroloquinoline quinone (PQQ), a redox cofactor of methanol and glucose dehydrogenases has been well established as essential for phosphate solubilization. PQQ operon has been well studied in growth promoting rhizobacteria like Pseudomonas spp., Gluconobacter oxydans, Klebsiella pneumoniae, etc. However, the role of PqqB is quite ambiguous as its functional role has been contradicted in many studies. In the present study, we selected Pseudomonas stutzeri – a well-known P solubilizing bacterium as a representative species of the Pseudomonas genus on the basis of phylogenetic and statistical analyses of PqqB proteins. A 3 D model was generated for this protein. Docking of PqqB with PQQ showed good interaction with a theoretical binding affinity of −7.4 kcal/mol. On the other hand, docking of PqqC with 3a-(2-amino-2-carboxy-ethyl)-4,5-dioxo-4,5,6,7,8,9-hexahydro-quinoline-7,9-dicarboxylic acid (AHQQ, immediate precursor of PQQ) showed strong interaction (−10.4 kcal/mol) but the same was low with PQQ (−6.4 kcal/mol). Molecular dynamic simulation of both the complexes showed stable conformation. The binding energy of PqqB-PQQ complex (−182.710 ± 16.585 kJ/mol) was greater than PqqC-PQQ complex (-166.114 ± 12.027 kJ/mol). The results clearly indicated that kinetically there is a possibility that after cyclization of AHQQ to PQQ by PqqC, PQQ can be taken up by PqqB and transported to periplasm for the oxidation of glucose. To the best of our knowledge, this is the first attempt to understand the biological role of PqqB on the basis of molecular interactions and dynamics. Communicated by Ramaswamy H. Sarma

Discerning novel drug targets for treating Mycobacterium avium ss. paratuberculosis-associated autoimmune disorders: an in silico approach.

Mycobacterium avium subspecies paratuberculosis (MAP) exhibits 'molecular mimicry' with the human host resulting in several autoimmune diseases such as multiple sclerosis, type 1 diabetes mellitus (T1DM), Hashimoto's thyroiditis, Crohn's disease (CD), etc. The conventional therapy for autoimmune diseases includes immunosuppressants or immunomodulators that treat the symptoms rather than the etiology and/or causative mechanism(s). Eliminating MAP-the etiopathological agent might be a better strategy to treat MAP-associated autoimmune diseases. In this case study, we conducted a systematic in silico analysis to identify the metabolic chokepoints of MAP's mimicry proteins and their interacting partners. The probable inhibitors of chokepoint proteins were identified using DrugBank. DrugBank molecules were stringently screened and molecular interactions were analyzed by molecular docking and 'off-target' binding. Thus, we identified 18 metabolic chokepoints of MAP mimicry proteins and 13 DrugBank molecules that could inhibit three chokepoint proteins viz. katG, rpoB and narH. On the basis of molecular interaction between drug and target proteins finally eight DrugBank molecules, viz. DB00609, DB00951, DB00615, DB01220, DB08638, DB08226, DB08266 and DB07349 were selected and are proposed for treatment of three MAP-associated autoimmune diseases namely, T1DM, CD and multiple sclerosis. Because these molecules are either approved by the Food and Drug Administration or these are experimental drugs that can be easily incorporated in clinical studies or tested in vitro. The proposed strategy may be used to repurpose drugs to treat autoimmune diseases induced by other pathogens.

Intestinal Expression of miR-130b, miR-410b, and miR-98a in Experimental Canine Echinococcosis by Stem-Loop RT-qPCR

Echinococcus granulosus is a zoonotic cestode dwelling in the small intestine of canid definitive hosts. Intermediate hosts are a wide range of domestic and wild ungulates. Human infection with the larval stage causes cystic echinococcosis. Understanding the nature and extent of molecular mechanisms involved in host–parasite interactions helps to answer some very basic questions in the biology of cestode parasites with significant implications in the management and control of cystic echinococcosis. Little is known on the miRNAs expression in the intestinal tissues of dogs infected with E. granulosus. In the present study, expression of a selected profile of miRNAs was evaluated in experimental canine echinococcosis. MiRNAs were extracted from 20 different parts of small intestinal tract of two sibling 3-months-old mix-breed dogs. Complementary DNA was specifically synthesized using an optimized stem-loop system. Intestinal expression of four miRNAs (cfa-let7g, cfa-miR-98, cfamiR-410, cfa-miR-130b) was evaluated using RT-qPCR. The results of the study indicate a significant difference between test and control dogs in cfamiR-130b, cfa-miR-98, and cfa-miR-410 (P ≤ 0.05); however, there was no significant difference for cfa-let7g. The most upregulated miRNAs were cfamiR-130b and cfa-miR-98. An increasing trend for cfa-let7g and a declining trend for cfa-miR-98, cfa-miR-410, and cfamiR-130b were found toward the distal segments of the small intestine. Our study revealed that cfa-miR-98, cfa-miR-410, and cfamiR-130b are involved in the definitive host response in canine echinococcosis. The study provides new information on the molecular basis of interactions between E. granulosus and dogs in terms of miRNA expression and showed that E. granulosus infection could increase the expression of some pro-inflammatory miRNAs at the cellular level in the definitive host.

Effect of graphene oxide dispersion in antiferroelectric liquid crystal mixture in the verge of SmC* to SmCA* phase transition

The continuous growing demand for nanoscience applications and the improvement in the performance of liquid crystal based devices has been extensively required by the technological world. Recent progress in the field of liquid crystals has found its practical implementation in various display and non display devices which experiences obstacle due to impurity effects that reduces its performance. The dispersion of nanoparticles in liquid crystal medium helps in the reduction of impurity ions and thus improving the performance of liquid crystal based devices. The present work is based on the collective dielectric relaxation processes that have been observed in antiferroelectric liquid crystal (AFLC) mixture W1000 dispersed with 0.1% wt/wt and 0.3% wt/wt concentrations of graphene oxide. Graphene oxide itself favors vertical alignment and the coupling of AFLC W1000 mixture with graphene oxide affects its molecular ordering. This has been confirmed from the polarizing optical micrographs. The dielectric relaxation modes have been observed with and without the application of bias voltage in SmC* to SmCA* phase transition during cooling cycle. The appearance and disappearance of PL, PH and X modes have been observed and are explained on the basis of molecular interactions. Graphene oxide dispersed system favors homeotropic alignment (dark state) and the application of bias field will convert it into homogenous alignment (bright state). Graphene oxide dispersion find prospective applications in good contrast display devices, supercapacitors, electronic gadgets, rechargeable batteries. Electro optical results unveil the faster response time, decreased rotational viscosity and spontaneous polarization with no change in tilt angle for the dispersed system. These observations can be exploited in photonic switches with sub millisecond response time which are required for fabricating faster liquid crystal devices.

A study of T7 RNA polymerase‐Template interaction utilizing CRISPR/dCas9 protein

The CRISPR system is an adaptive immune mechanism present in many bacteria and the majority of characterized Archaea. This system binds to nucleic acids, which can be RNA or DNA and modifies specific sequences at desired locations. Although the CRISPR system can form the basis of a flexible genomic engineering toolkit, its molecular basis of interaction with DNA, RNA and other proteins during transcription is not yet clear. This research is investigating the structural and chemical interaction between dCas9, DNA and RNA polymerase at the point of the transcription blockade. This modified CRISPR system consists of two components. dCas9 protein has the ability to bind DNA at a specific location when guided by a complementary RNA molecule. This complementary RNA is called guide RNA (gRNA). T7 RNA polymerase in vitro transcription of purified U5 DNA template was optimized with respect to time, template and rNTP concentration. This established conditions under which to pause transcription, utilizing dCas9 protein, and analyze protein, polymerase, and nucleic acid interactions.

Bio-protection of brown spot disease of rice and insight into the molecular basis of interaction between Oryza sativa, Bipolaris oryzae and Bacillus amyloliquefaciens

The aim of the study is to evaluate the efficacy of Bacillus amyloliquefaciens strain BS5 against brown spot disease of rice and to understand the molecular mechanism of host-pathogen-bioagent interactions through a proteomic approach. We tested the antagonistic potential of forty Bacillus spp. against Bipolaris oryzae under in vitro. Based on their antagonism, ten effective strains were selected and characterized at the molecular level. The antibiotic biosynthetic genes producing bacillomycin, bacilysin, iturin, surfactin, subtilin, mersacidin, subtilosin, ericin, mycosubtilin and fengycin from the effective strains were detected by PCR analysis. Among the strains, BS5 exerted higher mycelial growth inhibition (76.66%) of the pathogen and possesses the maximum number (9) of antibiotic genes as well. We also evaluated the efficacy of liquid formulation of the Bacillus strains BS5, BS6 and BS39 against brown spot disease under glasshouse and field conditions. The results indicated a significant reduction in the intensity of brown spot disease with the combined application of seed treatment + seedling dip + foliar spray of BS5 liquid formulation under glasshouse and field conditions. Furthermore, a 2D-PAGE analysis revealed a total of nine proteins with differential expressions using MALDI-TOF Mass spectrometry (MS). The Mascot algorithm demonstrated homology among proteins such as ribulose 1, 5 bisphosphate carboxylase, 2-cys-peroxiredoxin, ATP synthase, trehalose-phosphate phosphatase, serine/threonine protein kinase and 50s ribosomal protein. The functions of the proteins were mainly related to plant metabolism, defense response and disease resistance. The three ways synergy associated with the host-pathogen-bioagent of rice plants will be provided in this study.

Molecular basis for interactions between an acyl carrier protein and a ketosynthase.

Fatty acid synthases are dynamic ensembles of enzymes that can biosynthesize long hydrocarbon chains efficiently. Here we visualize the interaction between the Escherichia coli acyl carrier protein (AcpP) and β-ketoacyl-ACP-synthase I (FabB) using X-ray crystallography, NMR, and molecular dynamics simulations. We leveraged this structural information to alter lipid profiles in vivo and provide a molecular basis for how protein-protein interactions can regulate the fatty acid profile in E. coli.

From single bacterial cell imaging towards in vivo single-molecule biochemistry studies.

Bacteria as single-cell organisms are important model systems to study cellular mechanisms and functions. In recent years and with the help of advanced fluorescence microscopy techniques, immense progress has been made in characterizing and quantifying the behavior of single bacterial cells on the basis of molecular interactions and assemblies in the complex environment of live cultures. Importantly, single-molecule imaging enables the in vivo determination of the stoichiometry and molecular architecture of subcellular structures, yielding detailed, quantitative, spatiotemporally resolved molecular maps and unraveling dynamic heterogeneities and subpopulations on the subcellular level. Nevertheless, open challenges remain. Here, we review the past and current status of the field, discuss example applications and give insights into future trends.

Evaluation of reference genes and expression of key genes involved in the isoprenoid metabolic pathway of rice leaves after infection by the Southern rice black-streaked dwarf virus

The Southern rice black-streaked dwarf virus (SRBSDV), a novel Fijivirus, poses a major threat to rice production in East Asia. Analysis of the gene expression of SRBSDV-infected rice plants may reveal the molecular basis of interactions between the virus, its vector and rice plants. Reliable reference genes are required for accurate qRT-PCR analysis. However, no reliable, valid reference genes for examining gene expression in SRBSDV-infected rice plants have so far been identified. We examined the expression of eight candidate reference genes in the leaves of SRBSDV-infected, and healthy, rice plants at different points in time after virus inoculation. We used four dedicated algorithms, geNorm, BestKeeper, NormFinder and RefFinder, to evaluate the performance of these candidate genes. The RefFinder results indicate that 18S, EF1α and UBQ10 are suitable reference genes. In addition, we used these three reference genes to analyze the expression of key genes involved in the isoprenoid metabolic pathway in rice leaves after infection by SRBSDV. The results of this analysis reveal that SRBSDV may suppress the production of the rice plant volatiles that attract natural enemies of its vector Sogatella furcifera, thereby increasing the likelihood of pathogen transmission.