Raman Sundaram - Academia.edu (original) (raw)

Papers by Raman Sundaram

Genes

The brown planthopper (BPH) is a highly destructive pest of rice, causing significant economic lo... more The brown planthopper (BPH) is a highly destructive pest of rice, causing significant economic losses in various regions of South and Southeast Asia. Researchers have made promising strides in developing resistance against BPH in rice. Introgression line RPBio4918-230S, derived from Oryza nivara, has shown consistent resistance to BPH at both the seedling and adult stages of rice plants. Segregation analysis has revealed that this resistance is governed by two recessive loci, known as bph39(t) and bph40(t), contributing to 21% and 22% of the phenotypic variance, respectively. We later mapped the genes using a backcross population derived from a cross between Swarna and RPBio4918-230S. We identified specific marker loci, namely RM8213, RM5953, and R4M17, on chromosome 4, flanking the bph39(t) and bph40(t) loci. Furthermore, quantitative expression analysis of candidate genes situated between the RM8213 and R4M17 markers was conducted. It was observed that eight genes exhibited up-reg...

Frontiers in Plant Science

Bacterial blight disease of rice caused by Xanthomonas oryzae pv. oryzae (Xoo) is one of the most... more Bacterial blight disease of rice caused by Xanthomonas oryzae pv. oryzae (Xoo) is one of the most serious constraints in rice production. The most sustainable strategy to combat the disease is the deployment of host plant resistance. Earlier, we identified an introgression line, IR 75084-15-3-B-B, derived from Oryza officinalis possessing broad-spectrum resistance against Xoo. In order to understand the inheritance of resistance in the O. officinalis accession and identify genomic region(s) associated with resistance, a recombinant inbred line (RIL) mapping population was developed from the cross Samba Mahsuri (susceptible to bacterial blight) × IR 75084-15-3-B-B (resistant to bacterial blight). The F2 population derived from the cross segregated in a phenotypic ratio of 3: 1 (resistant susceptible) implying that resistance in IR 75084-15-3-B-B is controlled by a single dominant gene/quantitative trait locus (QTL). In the F7 generation, a set of 47 homozygous resistant lines and 47 ...

Frontiers in Microbiology

Heat stress caused due to increasing warming climate has become a severe threat to global food pr... more Heat stress caused due to increasing warming climate has become a severe threat to global food production including rice. Silicon plays a major role in improving growth and productivity of rice by aiding in alleviating heat stress in rice. Soil silicon is only sparingly available to the crops can be made available by silicate solubilizing and plant-growth-promoting bacteria that possess the capacity to solubilize insoluble silicates can increase the availability of soluble silicates in the soil. In addition, plant growth promoting bacteria are known to enhance the tolerance to abiotic stresses of plants, by affecting the biochemical and physiological characteristics of plants. The present study is intended to understand the role of beneficial bacteria viz. Rhizobium sp. IIRR N1 a silicate solublizer and Gluconacetobacter diazotrophicus, a plant growth promoting bacteria and their interaction with insoluble silicate sources on morpho-physiological and molecular attributes of rice (Or...

Physiology and Molecular Biology of Plants

restoring alleles) at BC 1 F 1 generation to identify maintainer lines. The positive plants with ... more restoring alleles) at BC 1 F 1 generation to identify maintainer lines. The positive plants with Rf4 gene were added to the restorer pool for restorer line development. At each stage, MAS for Pi2 coupled with stringent phenotypic selection for agro-morphological and grain quality traits were exercised. At BC 1 F 3 generation, one hundred families were screened against blast disease at uniform blast nursery (UBN) and selected resistant lines were advanced to next generations. In the BC 1 F 5 generation plants were subjected to agro-morphological evaluation for yield and yield-contributing traits. The selected plants at BC 1 F 5 generation were crossed with DRR 9A to assess the maintainer ability of blast resistance lines and for further CMS line conversion for hybrid rice breeding for developing blast resistance rice hybrids.

International Journal of Environment and Climate Change

Drought has been one of the most important limiting factors for rice productivity, particularly i... more Drought has been one of the most important limiting factors for rice productivity, particularly in the rainfed ecosystem. It is important to understand the genetic basis of drought tolerance in donor lines and develop drought tolerant rice cultivars, based on this information. We earlier identified the rice line, Rasi as tolerant to drought and developed a recombinant inbred line (RIL) mapping population consisting of 209 lines. These lines along with their parents were grown under well-watered and drought stress conditions in a two-year experiment (wet season 2020 and 2021) with drought stress imposed during reproductive stage. The study revealed high genetic variability for 12 key agro morphological traits associated with drought tolerance among the RILs. Of the 209 RILs, 59 showed superior performance over the checks and even the tolerant parent, Rasi under severe drought condition. Two RILs, RIL-33 and RIL-58 showed exceptional drought tolerance along with greater plot yield an...

Journal of Plant Biochemistry and Biotechnology, 2019

Knowledge of genetic diversity and potential heterotic relationships among parental lines is of s... more Knowledge of genetic diversity and potential heterotic relationships among parental lines is of significant importance in hybrid rice breeding programs. In the present study, in order to understand the genetic diversity among 96 parental lines, they were characterized for their diversity with respect to their morphological traits (n = 12) and molecular markers using a set of 50 SSR markers. Morphological diversity was estimated using Mahalanobis D 2 statistics in terms of generalized group distance. Based on morphological diversity analysis, the 96 lines were grouped into 5 major and 13 monogenotypic clusters. In molecular marker analysis, the parental lines were consistently clustered into B (Maintainer group) and R (Restorer group) groups based on distance and model based approaches. Strong correspondence was observed between the pedigree of parental lines with molecular genotyping based grouping than morphological trait based grouping. From the results of the present investigation, it is evident that the available diversity among the two groups i.e., maintainer group (B) and restorer group (R) is sufficient for developing heterotic hybrids, but within the maintainer and restorer groups, the diversity is limited, the diversity among restorers was moderate, while it was low among the maintainers and hence efforts are needed for broadening their genetic base of parental lines for development and adoption of high-yielding hybrids.

Journal of cardiovascular pharmacology and therapeutics, 2011

Nerium oleander Linn (NOL) an evergreen shrub belonging to the Apocynaceae family has been report... more Nerium oleander Linn (NOL) an evergreen shrub belonging to the Apocynaceae family has been reported to have a wide spectrum of bioactivities. In in vitro study, the free radical scavenging potential of the hydroethanolic extract of N oleander Linn (ENO) flower and its fractions (glycosidic and nonglycosidic) were studied using 2, 2(')-azino-di [3-ethylbenzthiazoline sulphonate] (ABTS(*+) ) and 1, 1-diphenyl-2-picrylhydrazyl (DPPH*) scavenging assay. ENO exhibited better radical scavenging activities than its fractions. Furthermore, the cardioprotective role of ENO (10, 30, 100 mg/kg, per oral [po]) was tested against isoproterenol-induced myocardial toxicity (ISO, 120 mg/kg per day, subcutaneously [sc], for 2 days at 48 hours interval) in experimental rats when compared to propranolol (5 mg/kg, po) which was the standard. Pretreatment with ENO (10, 30, and 100 mg/kg) and propranolol for 2 weeks followed by ISO challenge in rats prevented the elevation of marker enzymes such as l...

Indian Journal of Plant Genetic Resources, 2010

Sustainability

In agroecosystems, drought is a critical climatic phenomenon that affects evapotranspiration and ... more In agroecosystems, drought is a critical climatic phenomenon that affects evapotranspiration and induces water stress in plants. The objective in this study was to characterize and forecast water stress in the Hyderabad region of India using artificial intelligence models. The monthly precipitation data for the period 1982–2021 was characterized by the standardized precipitation index (SPI) and modeled using the classical autoregressive integrated moving average (ARIMA) model and artificial intelligence (AI), i.e., artificial neural network (ANN) and support vector regression (SVR) model. The results show that on the short-term SPI3 time scale the studied region experienced extreme water deficit in 1983, 1992, 1993, 2007, 2015, and 2018, while on the mid-term SPI6 time scale, 1983, 1991, 2011, and 2016 were extremely dry. In addition, the prediction of drought at both SPI3 and SPI6 time scales by AI models outperformed the classical ARIMA models in both, training and validation data...

Molecular Breeding, 2016

WA-CMS system based rice hybrids are widely adopted in many rice growing countries, including Ind... more WA-CMS system based rice hybrids are widely adopted in many rice growing countries, including India. Even though it is well known that the trait is controlled by mitochondria, the genes underpinning the trait remain enigmatic. In the present study, a complete genome-wide comparative sequence analysis was performed using draft mitochondrial genomes of WA-CMS and male fertile lines in a step-wise manner, progressively covering 5–10 kb every time through BLASTN tool. The sequence polymorphisms identified in different mitochondrial regions were targeted to develop two different sets of dominant PCR-based markers, one consisting of six markers targeting WA-CMS mitochondria, the other set consisting of five markers targeting male fertile mitochondria in addition to development of a set of eight co-dominant PCR-based markers targeting both the genomes. When a set of candidate genes/ORFs reported earlier to be associated with WA-CMS trait in rice were analyzed through RT-PCR of RNA isolated from immature rice florets, it was observed that the chimeric ORF, WA352 is expressed only in WA-CMS line and hybrid (i.e. genotypes containing sterile mitochondria), indicating it’s candidacy for the WA-CMS trait. Targeting the functional nucleotide polymorphism between WA-CMS and maintainer mitochondria with respect to WA352, two dominant markers, one targeting sterile and another targeting fertile mitochondria were developed. In addition, a robust, co-dominant functional marker targeting the candidate gene was also developed and validated for its utility in identification of genetic impurities in seed lots of WA-CMS lines.

Indian Journal of Genetics and Plant Breeding (The), 2014

Rice (Oryza sativa L.) is the major staple food crop which feeds more than half of the world's po... more Rice (Oryza sativa L.) is the major staple food crop which feeds more than half of the world's population. However, rice endosperm lacks pathway to synthesize provitamin A. Therefore, rice eaters particularly children and pregnant women suffer due to vitamin A deficiency (VAD) which, besides causing night blindness, also makes them more prone to a range of ailments. With the aim of overcoming VAD, Golden Rice ® lines were developed by connecting the missing links of β β β β β-carotene pathway in the rice endosperm through genetic transformation. We present an overview on the origin of Golden Rice ® concept, development of prototypes, different generations of Golden Rice ® , various events and their characteristics, the progress in marker assisted development of Golden Rice ® and future prospects in India.

Rice

Background Improved Samba Mahsuri (ISM) is an elite, high-yielding, bacterial blight resistant, f... more Background Improved Samba Mahsuri (ISM) is an elite, high-yielding, bacterial blight resistant, fine-grained rice variety with low glycaemic index. It is highly sensitive to salt stress, particularly at seedling stage, which significantly reduces its yield potential in coastal areas. A salinity tolerant QTL, Saltol, associated with seedling stage tolerance was previously mapped on chromosome 1 (10.6–11.5 Mb) from the Indian landrace, Pokkali and is effective in different genetic backgrounds. The objective of this study was to enhance salinity tolerance of ISM by incorporating the Saltol QTL through marker-assisted backcross breeding using the breeding line, FL478 (Pokkali/IR29). Results Foreground selection was carried out at each generation using five Saltol-specific markers and three bacterial blight resistance genes, Xa21, xa13 and xa5. Background selection was conducted using 66 well distributed polymorphic SSR markers and at the BC3F2 generation, a single plant with maximum rec...

Plants

Integrated management of rice–maize systems is an emerging challenge in southern India due to imp... more Integrated management of rice–maize systems is an emerging challenge in southern India due to improper rice residues and tillage management in maize crops. Conservation agriculture (CA) practices such as a reduced tillage and maintaining stubble mulch may hold the potential to increase yields, reduce crop establishment costs and increase farm incomes. A five-year trial was performed to study the effect of different CA and establishment methods in rice on system productivity, profitability, and soil carbon status in a rice–maize system. In the rainy season, the trial consisted of two main treatments: (i) normal manual transplanting and (ii) direct-wet seeding, and three sub-main treatments at different sowing dates with fifteen day intervals. In addition, in the winter season, two tillage treatments (conventional and minimum tillage) were imposed over the rainy season treatments. Both rice and maize were grown under irrigated conditions. The results showed that sowing times at 15 day...

Journal of Plant Biochemistry and Biotechnology

Phosphorus (P) is an essential macronutrient to all crops including rice and it plays a key role ... more Phosphorus (P) is an essential macronutrient to all crops including rice and it plays a key role in various plant activities and development. Low availability of P in the soils negatively, influences rice crop growth and causes significant yield loss. In the present study, we characterized a set of 56 germplasm lines for their tolerance to low soil P by screening them at low soil P and optimum soil P levels along with low soil P tolerant and sensitive check varieties. These lines were genotyped for the presence/absence of tolerant allele with respect to the major low soil P tolerance QTL, Pup1, using a set of locus specific PCR-based markers, viz., K46-1, K46-2, K52 and K46CG-1. High genetic variability was observed for various traits associated with low soil P tolerance. The yield parameters from normal and low soil P conditions were used to calculate stress tolerance indices and classify the genotypes according to their tolerance level. Out of the total germplasm lines screened, 15 lines were found to be tolerant to low soil P condition based on the yield reduction in comparison to the tolerant check, but most of them harbored the complete or partial Pup1 locus. Interestingly, two tolerant germplasm lines, IC216831 and IC216903 were observed to be completely devoid of Pup1 and hence they can be explored for new loci underlying low soil P tolerance.

PLOS ONE

With an objective of mapping novel low soil P (Phosphorus) tolerance loci in the non-Pup1 type do... more With an objective of mapping novel low soil P (Phosphorus) tolerance loci in the non-Pup1 type donor rice line, Wazuhophek, we screened a recombinant inbred line (RIL) mapping population consisting of 330 lines derived from the cross Wazuhophek x Improved Samba Mahsuri (which is highly sensitive to low soil P) in a plot with low soil P for tolerance associated traits. Molecular mapping with SSR markers revealed a total of 16 QTLs (seven major and nine minor QTLs), which are associated with low soil P tolerance related traits. Interestingly, a QTL hotspot, harbouring 10 out of 16 QTLs were identified on the short arm of chromosome 8 (flanked by the makers RM22554 and RM80005). Five major QTLs explaining phenotypic variance to an extent of 15.28%, 17.25%, 21.84%, 20.23%, and 18.50%, associated with the traits, plant height, shoot length, the number of productive tillers, panicle length and yield, respectively, were located in the hotspot. Two major QTLs located on chromosome 1, associ...

Antibiotics, 2022

Bg_9562 is a potential broad-spectrum antifungal effector protein derived from the bacteria Burkh... more Bg_9562 is a potential broad-spectrum antifungal effector protein derived from the bacteria Burkholderia gladioli strain NGJ1 and is effective against Rhizoctonia solani, the causal agent of sheath blight in rice. In the present study, in vitro antifungal assays showed that Bg_9562 was efficient at 35 °C and 45 °C and ineffective either at high acidic pH (3.0) or alkaline pH (9.5) conditions. Compatibility studies between the native bioagents Trichoderma asperellum TAIK1 and Bacillus subtilis BIK3 indicated that Bg_9562 was compatible with the bioagents. A field study using foliar spray of the Bg_9562 protein indicated the need of formulating the protein before its application. In silico analysis predicted that Bg_9562 possess 111 amino acid residues (46 hydrophobic residues, 12 positive and 8 negative residues) with the high aliphatic index of 89.92, attributing to its thermostability with a half-life of 30 h. Bg_9562 (C491H813N137O166S5) possessed a protein binding potential of 1....