PaQGen Lab Plant Quantitative Genetics Lab

Research

Growing global demands for food and forage necessitates crop improvement programmes that can address the triple challenges of higher productivity, climate resilience, and nutritional security. Effective utilization of available and novel genetic resources is a key strategy for enhanced crop improvement. Crop wild relatives (CWRs) and underutilized crops are an invaluable and untapped resource of many desirable agronomic traits. The wild relatives and underutilized crops contain a wealth of diversity for various important traits. Oilseeds of the Brassica genus are significant contributors to the total edible oil consumed worldwide, second only to soybean oil. Brassica juncea, is an important oilseed crop in Asia, while Brassica napus is mostly grown in Europe and Canada. B. juncea has a narrow genetic base and has limited variability in terms of response to various biotic and abiotic stresses. We aim to harness the genetic diversity of the Brassica CWRs and underutilized crops of the Brassica genus such as Brassica carinata for crop improvement through traditional breeding approaches or cutting-edge genome editing techniques. The Brassica CWRs would be phenotyped for various traits including but not limited to disease resistance, flowering time, and oil quality. Additionally, new genome information would be generated for interesting CWRs to carry out comparative genomics analyses. Subsequently, loci responsible for traits of interest would be mapped and identified. The candidate genes/loci thus identified would be targeted for introgression through wide hybridizations or genome editing approaches. Overall, we aim to accelerate development of improved crop varieties that are highly productive, resilient to environmental challenges, and possess enhanced nutritional value.

Overview of research on CWRs and underutilized crops
Overview of research on CWRs and underutilized crops

Highlighted

A chromosome-scale assembly of Brassica carinata BBCC accession HC20 containing resistance to multiple pathogens and an early generation assessment of introgressions into B. juncea AABB
A chromosome-scale assembly of _Brassica carinata_(BBCC) accession HC20 containing resistance to multiple pathogens and an early generation assessment of introgressions into _B. juncea_ (AABB)
Kumar Paritosh, Sivasubramanian Rajarammohan, Satish Kumar Yadava, Sarita Sharma, Rashmi Verma, …, Arundhati Mukhopadhyay, Vibha Gupta, Akshay K. Pradhan, Jagreet Kaur, Deepak Pental
The Plant Journal  ·  09 May 2024  ·  doi:10.1111/tpj.16794

All

2024

A chromosome-scale assembly of Brassica carinata BBCC accession HC20 containing resistance to multiple pathogens and an early generation assessment of introgressions into B. juncea AABB
A chromosome-scale assembly of _Brassica carinata_(BBCC) accession HC20 containing resistance to multiple pathogens and an early generation assessment of introgressions into _B. juncea_ (AABB)
Kumar Paritosh, Sivasubramanian Rajarammohan, Satish Kumar Yadava, Sarita Sharma, Rashmi Verma, …, Arundhati Mukhopadhyay, Vibha Gupta, Akshay K. Pradhan, Jagreet Kaur, Deepak Pental
The Plant Journal  ·  09 May 2024  ·  doi:10.1111/tpj.16794

2023

Transcriptome Analysis of the Necrotrophic Pathogen i Alternaria brassicae i Reveals Insights into Its Pathogenesis in i Brassica juncea i
Transcriptome Analysis of the Necrotrophic Pathogen Alternaria brassicae Reveals Insights into Its Pathogenesis in Brassica juncea
Sivasubramanian Rajarammohan
Microbiology Spectrum  ·  13 Apr 2023  ·  doi:10.1128/spectrum.02939-22
Genome sequencing and assembly of i Lathyrus sativus i - a nutrient-rich hardy legume crop
Genome sequencing and assembly of Lathyrus sativus - a nutrient-rich hardy legume crop
Sivasubramanian Rajarammohan, Lovenpreet Kaur, Anjali Verma, Dalwinder Singh, Shrikant Mantri, Joy K Roy, Tilak Raj Sharma, Ashwani Pareek, Pramod Kaitheri Kandoth
Scientific Data  ·  17 Jan 2023  ·  doi:10.1038/s41597-022-01903-4

2022

A chromosome-scale assembly of i Brassica carinata i BBCC accession HC20 containing resistance to multiple pathogens and an early generation assessment of introgressions into i B. juncea i AABB
A chromosome-scale assembly ofBrassica carinata(BBCC) accession HC20 containing resistance to multiple pathogens and an early generation assessment of introgressions intoB. juncea(AABB)
Kumar Paritosh, Sivasubramanian Rajarammohan, Satish Kumar Yadava, Sarita Sharma, Rashmi Verma, …, Arundhati Mukhopadhyay, Vibha Gupta, Akshay K Pradhan, Jagreet Kaur, Deepak Pental
Cold Spring Harbor Laboratory  ·  17 Oct 2022  ·  doi:10.1101/2022.10.13.512038
Transcriptome analysis of the necrotrophic pathogen i Alternaria brassicae i reveals a biphasic mode of pathogenesis in i Brassica juncea i
Transcriptome analysis of the necrotrophic pathogen Alternaria brassicae reveals a biphasic mode of pathogenesis in Brassica juncea
Sivasubramanian Rajarammohan
Cold Spring Harbor Laboratory  ·  13 Sep 2022  ·  doi:10.1101/2022.09.12.507536
Intrarectal Capsazepine Administration Modulates Colonic Mucosal Health in Mice
Intrarectal Capsazepine Administration Modulates Colonic Mucosal Health in Mice
Vibhu Kumar, Vijay Kumar, Kirti Devi, Ajay Kumar, Rehan Khan, Ravindra Pal Singh, Sivasubramanian Rajarammohan, Kanthi Kiran Kondepudi, Kanwaljit Chopra, Mahendra Bishnoi
International Journal of Molecular Sciences  ·  24 Aug 2022  ·  doi:10.3390/ijms23179577
Antimicrobial Potential of Essential Oils from Aromatic Plant Ocimum sp.; A Comparative Biochemical Profiling and In-Silico Analysis
Antimicrobial Potential of Essential Oils from Aromatic Plant Ocimum sp.; A Comparative Biochemical Profiling and In-Silico Analysis
Prafull Salvi, Gulshan Kumar, Nishu Gandass, Kajal, Ashish Verma, Sivasubramanian Rajarammohan, Nilesh Rai, Vibhav Gautam
Agronomy  ·  04 Mar 2022  ·  doi:10.3390/agronomy12030627

2021

Functional characterisation of the Nep1-like protein effectors of the necrotrophic pathogen - i Alternaria brassicae i
Functional characterisation of the Nep1-like protein effectors of the necrotrophic pathogen - Alternaria brassicae
Deepak Duhan, Shivani Gajbhiye, Rajdeep Jaswal, Ravindra Pal Singh, Tilak Raj Sharma, Sivasubramanian Rajarammohan
Cold Spring Harbor Laboratory  ·  05 Jul 2021  ·  doi:10.1101/2021.07.04.450447

2020

Effector Biology of Biotrophic Plant Fungal Pathogens: Current Advances and Future Prospects
Effector Biology of Biotrophic Plant Fungal Pathogens: Current Advances and Future Prospects
Rajdeep Jaswal, Kanti Kiran, Sivasubramanian Rajarammohan, Himanshu Dubey, Pankaj Kumar Singh, Yogesh Sharma, Rupesh Deshmukh, Humira Sonah, Naveen Gupta, T.R. Sharma
Microbiological Research  ·  01 Dec 2020  ·  doi:10.1016/j.micres.2020.126567
Anti-inflammatory Bifidobacterium strains prevent dextran sodium sulfate induced colitis and associated gut microbial dysbiosis in mice
Anti-inflammatory Bifidobacterium strains prevent dextran sodium sulfate induced colitis and associated gut microbial dysbiosis in mice
Shashank Singh, Ruchika Bhatia, Pragyanshu Khare, Shikha Sharma, Sivasubramanian Rajarammohan, Mahendra Bishnoi, Sanjay Kumar Bhadada, Shyam Sunder Sharma, Jaspreet Kaur, Kanthi Kiran Kondepudi
Scientific Reports  ·  29 Oct 2020  ·  doi:10.1038/s41598-020-75702-5
Linear and branched i β- i Glucans degrading enzymes from versatile i Bacteroides uniformis i JCM 13288 sup T sup and their roles in cooperation with gut bacteria
Linear and branched β-Glucans degrading enzymes from versatile Bacteroides uniformis JCM 13288T and their roles in cooperation with gut bacteria
Ravindra Pal Singh, Sivasubramanian Rajarammohan, Raksha Thakur, Mohsin Hassan
Gut Microbes  ·  10 Oct 2020  ·  doi:10.1080/19490976.2020.1826761
Smut fungi as a stratagem to characterize rust effectors: opportunities and challenges
Smut fungi as a stratagem to characterize rust effectors: opportunities and challenges
Rajdeep Jaswal, Sivasubramanian Rajarammohan, Himanshu Dubey, T. R. Sharma
World Journal of Microbiology and Biotechnology  ·  14 Sep 2020  ·  doi:10.1007/s11274-020-02927-x
Draft Genome Sequence of Bifidobacterium pseudocatenulatum Bif4, Isolated from Healthy Infant Feces
Draft Genome Sequence of Bifidobacterium pseudocatenulatum Bif4, Isolated from Healthy Infant Feces
Atul Munish Chander, Shashank Singh, Shikha Sharma, Vasvi Chaudhry, Sivasubramanian Rajarammohan, Shrikant Subhash Mantri, Mahendra Bishnoi, Sanjay Kumar Bhadada, Kanthi Kiran Kondepudi
Microbiology Resource Announcements  ·  25 Jun 2020  ·  doi:10.1128/mra.00561-20
Correction to: Comparative genomics of Alternaria species provides insights into the pathogenic lifestyle of Alternaria brassicae a pathogen of the Brassicaceae family
Correction to: Comparative genomics of Alternaria species provides insights into the pathogenic lifestyle of Alternaria brassicae – a pathogen of the Brassicaceae family
Sivasubramanian Rajarammohan, Kumar Paritosh, Deepak Pental, Jagreet Kaur
BMC Genomics  ·  28 Jan 2020  ·  doi:10.1186/s12864-020-6504-5

2019

Comparative genomics of Alternaria species provides insights into the pathogenic lifestyle of Alternaria brassicae a pathogen of the Brassicaceae family
Comparative genomics of Alternaria species provides insights into the pathogenic lifestyle of Alternaria brassicae – a pathogen of the Brassicaceae family
Sivasubramanian Rajarammohan, Kumar Paritosh, Deepak Pental, Jagreet Kaur
BMC Genomics  ·  01 Dec 2019  ·  doi:10.1186/s12864-019-6414-6
ROS accumulation and associated cell death mediates susceptibility to Alternaria brassicae in Arabidopsis accessions
ROS accumulation and associated cell death mediates susceptibility to Alternaria brassicae in Arabidopsis accessions
Sayanti Mandal, Sivasubramanian Rajarammohan, Jagreet Kaur
Physiological and Molecular Plant Pathology  ·  01 Aug 2019  ·  doi:10.1016/j.pmpp.2019.06.001
Near-Complete Genome Assembly of i Alternaria brassicae i A Necrotrophic Pathogen of i Brassica i Crops
Near-Complete Genome Assembly of Alternaria brassicae—A Necrotrophic Pathogen of Brassica Crops
Sivasubramanian Rajarammohan, Deepak Pental, Jagreet Kaur
Molecular Plant-Microbe Interactions®  ·  01 Aug 2019  ·  doi:10.1094/mpmi-03-19-0084-a

2018

Genome wide association mapping in i Arabidopsis i identifies novel genes underlying quantitative disease resistance to i Alternaria brassicae i
Genome‐wide association mapping in Arabidopsis identifies novel genes underlying quantitative disease resistance to Alternaria brassicae
Sivasubramanian Rajarammohan, Akshay Kumar Pradhan, Deepak Pental, Jagreet Kaur
Molecular Plant Pathology  ·  01 Feb 2018  ·  doi:10.1111/mpp.12654

2017

Alternaria brassicae interactions with the model Brassicaceae member Arabidopsis thaliana closely resembles those with Mustard Brassica juncea
Alternaria brassicae interactions with the model Brassicaceae member Arabidopsis thaliana closely resembles those with Mustard (Brassica juncea)
Sayanti Mandal, Sivasubramanian Rajarammohan, Jagreet Kaur
Physiology and Molecular Biology of Plants  ·  16 Nov 2017  ·  doi:10.1007/s12298-017-0486-z
Genetic Architecture of Resistance to Alternaria brassicae in Arabidopsis thaliana: QTL Mapping Reveals Two Major Resistance-Conferring Loci
Genetic Architecture of Resistance to Alternaria brassicae in Arabidopsis thaliana: QTL Mapping Reveals Two Major Resistance-Conferring Loci
Sivasubramanian Rajarammohan, Amarendra Kumar, Vibha Gupta, Deepak Pental, Akshay K. Pradhan, Jagreet Kaur
Frontiers in Plant Science  ·  24 Feb 2017  ·  doi:10.3389/fpls.2017.00260

2015

Arabidopsis thaliana: A Model for Plant Research
Arabidopsis thaliana: A Model for Plant Research
R. Sivasubramanian, Nitika Mukhi, Jagreet Kaur
Plant Biology and Biotechnology  ·  01 Jan 2015  ·  doi:10.1007/978-81-322-2283-5_1