Dr. Channa Chikkaputtaiah - Research Interests

CRISPR/Cas9-based genome editing for Fusarium Wilt resistance in Solanum lycopersicum L.

This work explores the use of CRISPR/Cas9 genome editing to disrupt XSP10 and SISAMT, two negative regulatory genes implicated in Fusarium wilt susceptibility in tomato (Solanum lycopersicum). By knocking out these genes, the aim is to enhance the plant's innate immune response and develop durable, heritable resistance to the pathogen Fusarium oxysporum. The approach focuses on precise, transgene-free genetic modifications to ensure stability and regulatory acceptance. This strategy offers a sustainable solution to managing Fusarium wilt, contributing to long-term crop resilience and food security.

Precision genome editing for multi-stress adaptive traits in Solanum lycopersicum L. using CRISPR/Cas9 system

This study focuses on genome editing of SlHyPRP1 and SlDEA1, two genes belonging to the 8-cysteine motif (8CM) superfamily in tomato (Solanum lycopersicum). SlHyPRP1 has been identified as a negative regulator of abiotic stress in wild tomato, while the promoter region of SlDEA1 harbors key stress-responsive elements linked to both biotic and abiotic stress pathways. By targeting these genes using CRISPR/Cas9, the goal is to develop tomato lines with enhanced tolerance to multiple stresses through precise modification of stress-regulatory networks. This strategy holds promise for improving resilience in tomato under diverse environmental conditions, supporting sustainable crop improvement.

Development of CRISPR/Cas-based dual-stress tolerance in North East Indian (NEI) rice cultivars

This research utilizes CRISPR/Cas genome editing to improve drought and brown spot disease tolerance in traditional rice cultivars from North-East India. By targeted editing of specific negative regulatory genes, we aim to enhance stress resilience while maintaining agricultural performance. The edited lines undergo thorough evaluation through phenotypic, physiological, and molecular assays under both controlled and field drought conditions. Nutritional composition and grain quality are also assessed to ensure better nutrient bioavailability. This approach aims to foster sustainable agriculture and food security by developing climate-resilient and nutritionally superior rice varieties.

Development of high-yielding and lodging resistance in NEI aromatic rice (Kon Joha) through gene editing

Northeast India is home to diverse rice (Oryza sativa L.) landraces rich in health-promoting phytonutrients and unique flavors. Joha rice, an indigenous aromatic landrace from Assam, received a geographical indication (GI) tag in 2017 and is celebrated for its fine grain and aroma. It has a low glycemic index (over 55) and contains beneficial compounds such as antioxidants and omega-3 fatty acids, which may help prevent diabetes and cardiovascular diseases. However, Joha rice production suffers from lodging issues. This research aims to edit the SD1 (semi-dwarf 1) gene using CRISPR/Cas technology to create a semi-dwarf variety with higher yields, which could greatly benefit local farmers in Assam.

Endosperm-specific CRISPR/Cas12a genome editing in aromatic rice

Kon Joha, a traditional aromatic rice landrace from Northeast India, is prized for its unique aroma and fine grain quality. However, its yield is often limited by poor grain filling in inferior spikelets. This research employs a CRISPR/Cas12a genome editing method, using an endosperm-specific promoter, to modify genes related to ethylene biosynthesis. By reducing ethylene production, we improved starch accumulation in inferior spikelets, enhancing grain filling and overall yield without sacrificing aroma or quality. This approach offers a sustainable way to boost productivity in aromatic rice varieties while maintaining their distinct traits.

Enhancing rice blast tolerance by CRISPR/Cas12a-based editing of OsHDT701

Rice blast disease, caused by the fungus Magnaporthe oryzae, is a significant threat to rice cultivation globally, particularly in Assam, India, where rice is a staple food. High-yielding cultivars like Mahsuri and Ranjit are widely grown but are susceptible to this disease. This research utilizes CRISPR/Cas gene-editing technology to develop rice that is resistant to blast disease by silencing the OsHDT701 gene, which inhibits the plant's defense mechanisms. We altered the OsHDT701 gene in three varieties: Nipponbare (japonica), Ranjit, and Mahsuri (indica). The edited plants (T0) exhibited fewer blast symptoms than the wild-type plants, paving the way for the development of disease-resistant rice cultivars.

Establishment of in vitro transformation and CRISPR/Cas-based gene editing system in Pogostomon cablin

This research aims to establish in vitro transformation and the CRISPR/Cas genome editing system in the medicinal plant patchouli (Pogostemon cablin Benth.) variety Indonesia, widely grown in North-Eastern India. The primary goal is to create knockout mutants using CRISPR/Cas9 to better understand the genetic mechanisms of specific target genes. The study focuses on negative regulatory genes in the mevalonate (MVA) and MEP pathways to enhance essential oil production and identifies genes susceptible to root rot disease caused by Fusarium solani. This will be accomplished through transcriptomics to develop disease tolerance in patchouli