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"NRCPB Scientists succeeded in Decoding of Arhar Dal Genome"
Indian Council of Agricultural Research
Dr. Rajendra Prasad Rd., KrishiBhawan, New Delhi-110012
28 October 2011
Decoding of the ArharGenome by Indian Scientists: Paving the Way for
Green Revolution in Pulses
A group of thirty-one Indian scientists from ICAR Institutes, State Agricultural Universities and Banaras Hindu University, led by Prof. Nagendra Kumar Singh from ICAR’sNational Research Centre on Plant BiotechnologyatNew Delhi have decodedthe genome of ‘Arhar’, the second most important pulse crop of India. This is the first plant genome sequenced entirely through a network of Indian institutions and it will providehighly valuable resource for pigeonpea variety improvement.
Pigeonpeaor red gram(‘Arhar’or‘Tur’) is an important grain legume (Pulse) crop of India. About85% of the world pigeonpea is produced and consumed in India where it is a key crop for food and nutritional security of the people. India imports pigeonpea from Myanmar which is the second largest producer.The world acreage of pigeonpea is about 4.90mha with annual production of about 4.22mmt worth about 1.5 billion US dollars. India is the largest producer, consumer and importer of pigeonpea with annual production of 3.07 mmt, followed by Myanmar (0.72 mmt) and Malawi (0.15 mmt) (FAOSTAT 2008).
Average pulse crop productivity in India has remained lowat about 650 kg per hectarefor the last six decades leading to soaring ‘Dal’ priceswith increasing demands. Pulses are crucial for the dietary protein and mineral suppliesof a largely vegetarian and resource poor Indian population. Lack of high yielding, disease and pest resistant varieties is a major factor for the stagnant pulse productivity. Slow progress in breeding high yielding Arharvarieties is attributed to dearth of genetic information coupled with large crop duration and intractable pod borer problem and poor utilization of wild germplasm resources. Development of DNA markers tightly linked to important agronomic traits is a prerequisite for undertaking molecular breeding in crops. Availability of the Arhar genome sequence will accelerate development of new varieties and hybrids with enhanced productivity bymaking use of germplasm resources, in a waysimilar tothe rice genome experience.
The genome of popular Arhar variety ‘Asha’was assembled using long sequence reads of 454-FLXsecond generation sequencing technology resulting in 511 millionbase pairsof high quality genome sequence information. The scientists have identified47,004 protein coding genes in the Arhargenome, of which 1,213 genes are for disease resistance and 152 genes for tolerance to drought, heat and salinity that make it a hardy crop. In contrast to soybean, Arhar has fewer number of genes for oil biosynthesis and larger number of genes for cellulose biosynthesis which make it an oil-free woody plant. The genome sequence was used to developa large number of ‘Arhar’ DNA markers which were experimentally validated for high rate of variation among the pigeonpea varieties. These markers will be useful for DNA fingerprinting and diversity analysis of pigeonpea germplasm and molecular breeding applications.
Until a couple of years ago pigeonpea was considered an orphan legume crop because developed countries would not invest in the research due to the crop being cultivated mainly in the tropical and subtropical countries but now substantial amount of genomic resources have been generated, largely due to the efforts of Indo-US Agricultural Knowledge Initiative(AKI) and Network Project on Transgenics in Crops (NPTC) both with funding support from the ICAR.
Full article is available online at:
- National Research Centre on Plant Biotechnology (ICAR), New Delhi
- Indian Agricultural Research Institute (ICAR), New Delhi
- Indian Institute of Pulse Research (ICAR), Kanpur, UP
- Banaras Hindu University, Varanasi, UP
- PanjabraoDeshmukhKrishiVidyapeeth, Akola, Maharashtra
- University of Agricultural Sciences, Dharwad, Karnataka
Nagendra Singh (Project leader), Deepak Gupta, PawanJayaswal, Ajay Mahato, SutapaDutta, Sangeeta Singh, ShefaliBhutani, VivekDogra, Bikram Singh, GirirajKumawat, Jitendra Pal, AwadheshPandit, Archana Singh, HukumRawal, Akhilesh Kumar, Rama Prashat, AmbikaKhare, RekhaYadav, RanjitRaje, SubhojitDatta, Mahendra Singh, KeshavWanjari, BashasabFakrudin, RekhaKansal, Prasanta Dash, Pradeep Jain, Ramcharan Bhattacharya, KishorGaikwad, TrilochanMohapatra, R. Srinivasan, Tilakraj Sharma
Project Director (NRCPB): Dr. P. Anand Kumar
ADG (EQR)-ICAR;:Dr. R. K. Mittal
ADG (Seed)-ICAR: Dr. J.S. Sandhu
DDG (Education)-ICAR: Dr. Arvind Kumar
DDG (Crop Science)-ICAR: Dr. SwapanDutta
DG- ICAR: Dr. S. Ayyappan
Some Questions Answers
- How isArhar genome going to benefit the Indian farmers and general public?
- What is the Arhar genome project about?
- Who funded theArhar genome project?
- What was the role of ICRISAT and USA in the Arhar genome project?
- What is the basic genetic information on Arhar?
- How are plants different from animals in terms of total number of genes?
Presently, India is importing about 3 million tones of pulses at cost of aboutRs. 7000croresevery year. The large demand supply gap has led to soaring prices of Dal and food inflation. The decoding of Arhar genome has unfolded its complete genetic information content which will help faster development of high yielding, disease resistant and insect resistant varieties of Arharforhigher productivity on the farmer’s field and lower prices of Dal in the market for the general public.
The Arhar genome project was initiated under Indo-US AKI to generate all kinds of genomic resources in pigeonpea including EST sequences, trait mapping populations, mutant lines, BAC libraries, information databases and finally the complete physical map of the genome. Knowledge of location of each and every gene in the genome will help faster discovery of genes for important agronomic traits such as yield, disease resistance, insect resistance, water logging tolerance and breeding of improved variety of Arhar similar to rice and wheat.
The project was supported for four years (2005-06 to 2009-10) through the Education Divisionof ICAR. For the last two years (2010-11 and 2011-12) the project is being supported by theCrop Science Division of ICAR under NPTC project (Functional Genomics Component).The total cost of generating the first draft of Arhar genome sequence, including the support to AKI partners for arhar genomics resources has been about Rs. 11crores over the last six years. ICAR is nowputting heavy emphasis on the genomics of important indigenous crop plants untouched by the global genomics research.
Dr. R.K. Varshney from ICRISAT Hyderabad supported by ICAR and GCP projects and Prof. Dough Cook from University of California, Davis USA, supported by an NSF grant were involved in the first phase of the Indo-US AKI project in generating EST resources and BAC-end sequences and SSR markers but after the conclusion of Indo-US AKI in 2009-10, they have not been associated with the Indian Arhar genome sequencing network.
Number of chromosomes: 11 pairs
Genome size (Physical): 858 Mb (million base pairs)
Genome size (Genetic): 1057 cM (centi Morgan)
Plants seem to have highernumber of genes than animals mainly due to genome duplications (polyploidy), but they also perform additional biological functions of converting solar energy to chemical energy and non-living matter into organic compounds. Also they need a large number of defense genes to survive in the open nature as they cannot run away. Animals on the other hand have more number of genes for highly developed senses and locomotion related functions. For defense they are able created more proteins from less number of genes due to post transcriptional processing of antibody genes.