EVERYTHING; THERE IS A SEQUENCE and connected to a metabolic pathway Biofortification: Engineering the metabolic pathways Swapan Datta, DDG (Criop Science), ICAR, New Delhi Nutrition enriched food crop: Engineering metabolic pathways • • • • Importance of Nutrition Rice Why genetic engineering to alter the pathways? What and how do we understand the pathways Can pathways relate to functional gene expression? • Plant breeding, Cross-talk and phenotyping • Dream Nutrition-Rice GLOBAL FOOD SECURITY AND MALNUTRITION • • • • • • 1.1 billion are absolutely poor with incomes < 1U$ day 2.0 billion are marginally better off 840 million people are food insecure 200 million malnourished children 400 million have acute iron deficiency 125 million are affected by a lack of vitamin A • Only 4% rice of the world supply is non-traded internationally • Many of 8 billion people on the earth by 2020 will live outside the market driven supply of food 1 Billion people of world is malnourished while 30% Indian population (mostly women and children) are malnourished : Food + Nutrition Security come together & can easily be utilized with PDS Improved protein-potato (Ama1) Carotenoids enriched potato Insulin promoting rice Biofortified food crops for India? Canola with b-carotene Vitamin C food crop High iron rice b-carotene + Vit E rice Vitamin E + b-carotene maize am bo di M ya a nm ar L B an ao s gl ad e Vi sh et N a In do m ne s Th ia ai la nd Sr iL Ph ank a ili pp in es N ep al K In or ea dia D P K or Rp ea R ep M al ay si a C hi na Ja A p fg ha an ni st Pa an ki st an C % share 90 80 Nutrition from rice Protein Calories 70 60 50 40 30 20 10 0 IPP Gibberellins GGPP Vitamin E Chlorophyll Common pathway in plants (rice) PS (psy) Phytoene (1) PDS (crt1) Lycopene (2) LC (lyc) -carotene b-carotene (3) Pathway in transgenic rice Lutein GGPP Zeaxanthin b-carotene biosynthesis Fig. 1. Biosynthesis pathway of b-carotene Sources of Vitamin E : Tocotrienols Primary sources of vitamin E are derived from plants. Tocopherols and Tocotrienols are plastid localised molecules. Oil seeds are richest source of vitamin E, having total tocol levels ranging from 330 to 2,000 µg per gram. Tocotrienols are the primary form of vitamin E in seed endosperm of most monocots, including cereals, such as wheat, rice, and barley. Tocotrienols are found in the seed endosperm of a limited number of dicots, such as tobacco and found rarely in vegetative tissues of plants Strategies for increasing Vitamin E content in plant food Recommended daily allowances of vitamin E is 40 I.U. Much effort is currently aimed at identifying the genes involved in tocol biosynthesis to improve vitamin E levels in crop plants by metabolic engineering. Two strategies can be taken in this regard. 1. Produce elevated levels of total tocols through biosynthetic pathway. 2. Altering tocol composition in favor of α-tocopherol The isolation of genes for nearly all the steps in tocopherols and tocotrienols biosynthesis has fascilitated efforts to alter metabolic flux in plant cells. Biosynthetic pathway of Tocopherols & Tocotrienols Vitamin E- Maize HGGT catalyzes an analogous reaction to HPT, only it is highly specific for GGDP whereas HPT uses PDP as its prenyl substitute. Results from the expression of barley HGGT in transgenic plants suggest that this enzyme has strong substrate specificity for geranylgeranyl diphosphate, rather than phytyl diphosphate. Expression of HGGT enzyme in tobacco calli and Arabidopsis leaves resulted in accumulation of Vitamin E antioxidants in the form of tocotrienols ,principally as γTocotrienols, and generated little or no change in the content of Tocopherols (Cahoon et al, 2003) Barley HGGT gene was over-expressed in maize seeds, leading to a 20-fold increase in tocotrienol level, which translated to an eightfold increase in total tocols (tocopherols and tocotrienols) (Cahoon et al, 2003). Genotype screening for the carotenoids in brown and milled rice Variety Name Country of Origin HPLC Chromatograph of Unpolished Seed HPLC Chromatograph of Polished Seed I n d i v i d u a l S a m p le R e p o r t R e p o rte d b y U s e r: S y s t e m P r o je c t N a m e : I n d i v i d u a l S a m p le R e p o r t b e t a c a ro t e n e R e p o rte d b y U s e r: S y s t e m P r o je c t N a m e : b e t a c a ro t e n e 0 .0 0 3 0 A m a r i ll o C u p ls s e e d / 1 in H e x a n e A m a r i lo 0 .0 2 5 C p ls d s e e d / 1 g + M e O H 0 .0 0 2 5 0 .0 0 2 0 0 .0 2 0 0 .0 0 1 5 0 .0 1 5 A U Cuba A U Amarillo C 0 .0 1 0 0 .0 0 1 0 0 .0 0 0 5 0 .0 0 0 0 0 .0 0 5 I n d i v i d u a l S a m p le R e p o r t 0 .0 0 0 R e p o rte d b y U s e r: S y s t e m P r o je c t N a m e : I n d i v i d u a l S a m p le R e p o r t -0 . 0 0 0 5 b e t a c a ro t e n e R e p o rte d b y U s e r: S y s t e m P r o je c t N a m e : b e t a c a ro t e n e -0 . 0 0 1 0 2 .0 0 4 .0 0 6 .0 0 8 .0 0 1 0 .0 0 1 2 .0 0 M in u te s 1 4 .0 0 1 6 .0 0 1 8 .0 0 2 0 .0 0 2 2 .0 0 2 4 .0 0 2 .0 0 4 .0 0 6 .0 0 8 .0 0 1 0 .0 0 1 2 .0 0 M in u te s 1 4 .0 0 1 6 .0 0 1 8 .0 0 2 0 .0 0 2 2 .0 0 2 4 .0 0 0 .0 0 3 0 0 .0 0 3 0 B R 2 9 / 0 . 9 7 g , u n p ls h d s e e d ; B R 2 9 / 1 g , p ls h d 4 5 0 n m 0 .0 0 1 5 D e f a u lt I n d iv id u a l R e p o r t P r in t e d 9 :3 1 : 4 4 A M 7 /2 5 / 0 2 P a g e : 1 o f 1 R e p o rt I n d i v i d u a l S a m p le R e p o r t p o rte d b y U s e r: S y s t e m 4 .0 0 6 .0 0 P r o je c t 8 .0 0 1 0 .0 0 N a m e : 1 2 .0 0 M i n u te s 1 6 .0 0 P r in t e d 9 :4 0 : 4 4 A M 7 /2 5 / 0 2 P a g e : 1 o f 1 2 0 .0 0 2 2 .0 0 2 4 .0 0 0 .0 0 1 8 0 .0 0 1 6 0 .0 0 1 4 0 .0 0 1 2 0 .0 0 1 2 0 .0 0 1 0 P r in t e d 9 :0 2 : 0 7 A M 7 /2 5 / 0 2 P a g e : 1 o f 1 R e p o rt A U A U I n d iv id u a l R e p o r t 1 0 .0 0 N a m e : 1 2 .0 0 M in u te s b e t a c a ro t e n e 1 4 .0 0 1 6 .0 0 1 8 .0 0 k r a n t i/ 0 . 9 5 g , p ls h d M e t h o d : 0 .0 0 0 6 0 .0 0 0 4 0 .0 0 0 4 0 .0 0 0 2 0 .0 0 0 2 I n d i v i d u a l S a m p le R e p o r t 0 .0 0 0 0 D e f a u lt I n d iv id u a l R e p o r t P r in t e d 9 :0 4 : 1 0 2 0 .0 0 2 2 .0 0 2 4 .0 0 s e e d ; P D A 4 5 0 n m A M 7 /2 5 / 0 2 P a g e : 1 o f 1 I n d i v i d u a l S a m p le R e p o r t 0 .0 0 0 0 -0 . 0 0 0 2 -0 . 0 0 0 2 b y U s e r: S y s t e m P r o je c t N a m e : b e t a c a ro t e n e R e p o rte d -0 . 0 0 0 4 b y U s e r: S y s t e m P r o je c t N a m e : b e t a c a ro t e n e -0 . 0 0 0 4 2 .0 0 4 .0 0 6 .0 0 8 .0 0 1 0 .0 0 1 2 .0 0 M in u te s 1 4 .0 0 1 6 .0 0 1 8 .0 0 2 0 .0 0 2 2 .0 0 2 4 .0 0 2 .0 0 0 .0 0 7 4 .0 0 6 .0 0 8 .0 0 1 0 .0 0 1 2 .0 0 M in u te s 1 4 .0 0 1 6 .0 0 1 8 .0 0 2 0 .0 0 2 2 .0 0 2 4 .0 0 0 .0 0 7 L e u a n g B a n g B a i u p ls L e u a n g s e e d /1 g 0 .0 0 6 0 .0 0 6 0 .0 0 5 0 .0 0 5 0 .0 0 4 B a n g B a i p ls s e e d / 1 g 0 .0 0 4 D e f a u lt I n d iv id u a l R e p o r t P r in t e d 6 :1 1 : 4 8 P M 9 /1 3 / 0 2 P a g e : 1 o f 1 0 .0 0 3 R e p o rt A U A U P r o je c t 8 .0 0 0 .0 0 0 8 0 .0 0 0 6 M e t h o d : 6 .0 0 0 .0 0 1 0 D e f a u lt 0 .0 0 0 8 R e p o rt S y s t e m 4 .0 0 0 .0 0 2 0 0 .0 0 1 4 R e p o rte d U s e r: s e e d 0 .0 0 1 6 M e t h o d : b y 2 .0 0 0 .0 0 1 8 R e p o rt I n d i v i d u a l S a m p le R e p o r t R e p o rte d 1 8 .0 0 K r a n t i/ 1 g , u n p l s h d IRGC# 47858 I n d iv id u a l R e p o r t 0 .0 0 0 0 b e t a c a ro t e n e 1 4 .0 0 0 .0 0 2 0 Thailand D e f a u lt 0 .0 0 0 5 2 .0 0 Leuang Bang Bai M e t h o d : 0 .0 0 1 0 0 .0 0 0 5 0 .0 0 0 0 India 4 5 0 n m 0 .0 0 1 0 -0 . 0 0 R 0 5e Kranti P D A 0 .0 0 1 5 M e t h o d : A U R e p o rt A U Bangladesh ; 0 .0 0 2 0 0 .0 0 2 0 BR 29 s e e d 0 .0 0 2 5 0 .0 0 2 5 0 .0 0 2 M e t h o d : D e f a u lt I n d iv id u a l R e p o r t P r in t e d 2 :3 4 : 0 0 P M 7 /2 4 / 0 2 P a g e : 1 o f 1 0 .0 0 3 0 .0 0 2 0 .0 0 1 0 .0 0 1 I n d i v i d u a l S a m p le R e p o r t 0 .0 0 0 I n d i v i d u a l S a m p le R e p o r t 0 .0 0 0 R e p o rte d b y U s e r: 2 .0 0 S y s t e m 4 .0 0 6 .0 0 P r o je c t 8 .0 0 1 0 .0 0 N a m e : 1 2 .0 0 M in u te s b e t a c a ro t e n e 1 4 .0 0 1 6 .0 0 L e u a n g 0 .0 1 4 2 0 .0 0 Y a i u n p ls 2 2 .0 0 s e e d /1 g ; 2 4 .0 0 b y U s e r: 2 .0 0 4 5 0 n m S y s t e m 4 .0 0 6 .0 0 P r o je c t 8 .0 0 1 0 .0 0 N a m e : 1 2 .0 0 M in u te s b e t a c a ro t e n e 1 4 .0 0 1 6 .0 0 1 8 .0 0 L e u a n g 0 .0 1 4 0 .0 1 2 Y a i p ls 2 0 .0 0 s e e d / 1 g 2 2 .0 0 ; 2 4 .0 0 4 5 0 n m 0 .0 1 2 0 .0 1 0 0 .0 1 0 0 .0 0 8 0 .0 0 8 R e p o rt M e t h o d : D e f a u lt I n d iv id u a l R e p o r t P r in t e d 2 :4 9 : 1 6 P M 7 /2 5 / 0 2 P a g e : 1 o f 1 0 .0 0 6 R e p o rt A U Thailand A U Leuang Yai 74-4-20 R e p o rte d 1 8 .0 0 M e t h o d : D e f a u lt I n d iv id u a l R e p o r t P r in t e d 2 :5 0 : 4 4 P M 7 /2 5 / 0 2 P a g e : 1 o f 1 0 .0 0 6 0 .0 0 4 0 .0 0 4 0 .0 0 2 IRGC# 44159 I n d i v i d u a l S a m p le R e p o r t 0 .0 0 0 R e p o rte d b y U s e r: S y s t e m P r o je c t N a m e : I n d i v i d u a l S a m p le R e p o r t 0 .0 0 2 0 .0 0 0 b e t a c a ro t e n e R e p o rte d b y U s e r: S y s t e m P r o je c t N a m e : b e t a c a ro t e n e -0 . 0 0 2 2 .0 0 4 .0 0 6 .0 0 8 .0 0 1 0 .0 0 1 2 .0 0 M in u te s 1 4 .0 0 1 6 .0 0 1 8 .0 0 2 0 .0 0 2 2 .0 0 2 4 .0 0 2 .0 0 0 .0 0 3 5 4 .0 0 6 .0 0 8 .0 0 1 0 .0 0 1 2 .0 0 M in u te s 1 4 .0 0 1 6 .0 0 1 8 .0 0 2 0 .0 0 2 2 .0 0 2 4 .0 0 0 .0 0 3 5 S e re n d a h K u n in g u n p ls s e e d / 1 g S e re n d a h K u n in g p ls d s e e d /1 g 0 .0 0 3 0 0 .0 0 3 0 0 .0 0 2 5 0 .0 0 2 5 0 .0 0 2 0 IRGC# 47740 R e p o0 r. 0t 0M1 0e t h o d : D e f a u lt I n d iv id u a l R e p o r t P r in t e d 1 2 : 1 1 : 0 4 P M7 / 3 1 / 0 2 P a g e : 1 o f 1 R e p o0 .r0t 0 M 1 5e t h o d : A U Indonesia A U Serendah Kuning 0 .0 0 2 0 0 .0 0 1 5 D e f a u lt I n d iv id u a l R e p o r t P r in t e d 1 2 : 1 3 : 1 0 P M 7 /3 1 / 0 2 P a g e : 1 o f 1 0 .0 0 0 5 0 .0 0 1 0 0 .0 0 0 0 0 .0 0 0 5 -0 . 0 0 0 5 -0 . 0 0 1 0 0 .0 0 0 0 -0 . 0 0 1 5 -0 . 0 0 0 5 2 .0 0 4 .0 0 6 .0 0 8 .0 0 1 0 .0 0 1 2 .0 0 M in u te s 1 4 .0 0 1 6 .0 0 1 8 .0 0 2 0 .0 0 2 2 .0 0 2 4 .0 0 2 .0 0 4 .0 0 6 .0 0 8 .0 0 1 0 .0 0 1 2 .0 0 M in u te s 1 4 .0 0 1 6 .0 0 1 8 .0 0 2 0 .0 0 2 2 .0 0 2 4 .0 0 0.012 0.012 0.010 0.010 0.008 0.008 0.006 0.006 AU AU Gradual Decrease of Carotenoids with the Increasing of Polishing Time (SECONDS) 0.004 0.004 0.002 0.002 0.000 0.000 -0.002 5.00 10.00 15.00 20.00 Minutes 25.00 30.00 5.00 35.00 0.012 0.012 0.010 0.010 10.00 15.00 20.00 Minutes 25.00 30.00 35.00 0.008 0.008 AU AU 0.006 0.006 0.004 0.004 0.002 0.002 0.000 0.000 -0.002 5.00 10.00 15.00 20.00 Minutes 25.00 30.00 35.00 5.00 10.00 15.00 20.00 Minutes 25.00 30.00 35.00 Selected historical developments in carotenoid metabolism in relation to plant metabolic engineering Genes involved in carotenoid biosynthesis Cloned/ transferred Crop species Y1 cloned crtI (Phytene desaturase) cloned/ transformed crtE cloned A gene cluster cloned Erwinia herbicola psy transformed Tomato lcy cloned Daffodil psy cloned/ transformed Daffodil/ Rice crtB (phytoene synthase) transformed Brassica Maize Erwinia uredovora/ Tobacco/ Erwinia herbicola Remarks Importance of such regulatory gene in rice is conceptualized Herbicide resistance; Increased coding for GGPP synthase For complete carotenoid pathway Resulted in dwarfism redirecting the metabolites from gibberellin pathway Lycopene to beta-carotene Accumulation of phytoene in rice endosperm Overexpression led to increase in carotenoids and other metabolites Reference Buckner et al. 1990 Misawa et al 1990, 1993 Math et al 1992 To et al 1994 Fray et al 1995 Al-Babili et al 1996 Scheldz et al 1996; Burkardt et al 1997 Shewmaker et al 1999 Carotenoids biosynthesis in plants Datta K et al (2003) Plant Biotech J (Transgenic IR64, several other cultivars using Mannose selection system) Hoa et al (2003) Plant Physiol (Transgenic indica rice ) Parkhi et al (2005) Mol Genet Genomics (Marker free BR29 GR by Agrobacterium) Paine et al (2006) Nature Biotech (High carotenoids in US cultivar) Datta K et al. (2006) Current Sci (High carotenoids indica rice) Parkhi et al (2006) Plant Sci (Protection against draught) Krishnan et al (2009) Plant Science VPBR29-9 56 59 61 64 65 66 69 VPBR29-32 70 71 72 74 1 2 3 19 27 47 51 57 NT P 3.2 kb (crtI) 1.5 kb (hph) Fig 3 P NT VPBR29-9 VPBR29-31 3.2 kb (crtI) 1.5 kb (psy) Fig 4 Golden BR29 rice without a marker gene (Mol Gen Genomics 2005) Datta K et al PBJ, 2003/2005,2006 Parkhi et al MGG, 2005,2006 Rai et al 2003,2006 Ye et al Science, 2000 Painie et al Nature Biotech, 2005 Commercial right of GR remains with Syngenta 3.0-9.1 mg/g, DH homozygous lines developed Golden Rice (BR29) developed at IRRI is now in Bangladesh soil Syngenta-Golden Rice (GR2) is now in field at Louisiana, USA BR29 β-crt 0.12 BR29 0.10 Lui AU 0.08 0.06 α-crt 0.04 β-cry 0.02 0.00 5.00 10.00 15.00 Minutes 20.00 25.00 30.00 Fig. HPLC chromatograms showing beta carotene peaks in the carotenoid extract from polished seeds of one progeny of BR29 in T1 generation LBA4404/pZPsC + LBA4404/pZLcyH Co-transformation Hemizygous T309 GoldenRice (Ye et al. 2000) Molecular analysis Phenotyping Dihaploid homozygous T309 GoldenRice (Baisakh et al. 2001b) x IR64 Anther culture PCR analysis Flow chart for the IR64 Development of x F1 1st Backcrossing Marker-free Near-isogenic golden BC1F1 PCR screening and Southern confirmation BC1F1 progenies Marker-free x IR64 Selection of hph negative transgenic progenies Rice lines of IR64 2nd Backcrossing BC2F2 Marker-free Molecular analysis Selfing Phenotyping HPLC IR64 NILs Marker-free BC2F1 Marker-free Agronomic performance of transgenic Golden rice (cv. IR64) vis-à-vis the IR64 control Plant height (cm) No. of panicles per plant No. of grains per panicle No. of unfilled spikelets per panicle Spikelet fertility (%) 1,000grain weight (g) Biological yield per plant (g) Grain yield per plant (g) Harvest index (%) Mean 107.13 9.13 88.81 34.16 71.46 25.86 109.25 13.49 13.66 SEm 0.745 0.358 2.460 1.364 1.078 0.168 5.953 0.661 0.610 Mean 108.80 8.65 86.05 28.75 74.67 25.77 98.98 13.74 14.86 SEm 1.733 0.539 5.558 3.312 2.635 0.223 9.309 1.350 1.290 0.950ns 0.391ns 0.242ns 2.881ns 1.627 ns 0.060ns 0.702 ns 0.030ns 0.770 ns Characters Treatments TRANSGENIC CONTROL F-value (transgenic vs. control) ns= nonsignificant at p 0.05 (Rai et al. RGN 2004) T3 progenies of transgenic golden IR64 NT PC 3.8-kb Fig. 1. Southern blot showing homozygous progenies of Golden indica rice (cv. IR64) with integration of a 3.8-kb fragment T C C T Fig. 2. Transgenic Golden indica rice (T) and control rice (cv. IR64; C) showing uniformity in overall phenotype (left panel) and grain filling (right panel) grown under screenhouse conditions at IRRI, Philippines. URP1 URP2 URP3 URP4 12 3 4 5 6 7 8 M 12 3 4 5 6 7 8 M 12 3 4 5 6 7 8 M 12 3 4 5 6 7 8 M URP5 URP6 URP7 URP8 URP10 URP11 12 3 4 5 6 7 8 M 12 3 4 5 6 7 8 M 12 3 4 5 6 7 8 M 12 3 4 5 6 7 8 M M1 2 3 4 5 6 7 8 M 1 2 3 4 5 6 7 8 M Fig. 3. Transgenic Golden indica rice of NHCD (lanes 1 and 2 in each panel) and IR64 (lanes 4, 5, 6, and 7 in each panel) showing no polymorphism with Universal rice primers (URP) vis-à-vis their respective controls (lanes 3 and 8 in each panel). M = 1 kb-plus molecular weight marker. Essential Minerals: Iron Iron deficiency is the most widespread micronutrient deficiency worldwide. Approx. 30% of world population suffers from serious nutritional problems caused by insufficient intake of iron (WHO 1992). It is the important constituent of hemoglobin, the oxygen carrying component of blood, and also a part of myoglobin that helps muscle cells to store oxygen. It is present in food in both inorganic (ferric and ferrous) and organic (heme and nonheme) forms. Highly bioavailable heme iron is derived primarily from animal source. Biofortified iron rice Screening for iron- Mutational rich rice varieties breeding Transgenic plant strategy 1. High iron and enhanced carotenoids/beta-carotene rice 2. Reduced content of phytate in rice grains Increased bioavailabillity of Fe and Zn Sst I nos Bam HI ferritin GluB-1 Sst I nos 35S bar Bam HI Kpn I ferritin Sst I nos Hind III Glo-P Bam HI Kpn I ferritin Pro-P Vasconcelos et al Plant Sci 2003 Tan et al Int J Food Sci Tech 2004 Khalekuzzaman et al In J Biotech 2006 g7 The Aspartate-Family Biosynthetic Pathway Aspartate AK b-aspartyl phosphate aspartic b-semialdehyde Threonine Methionine DHDPS 2-3 dihydropicicolinate 5 steps Lysine Technologies Ready for transfer 1. 30 Normal and 8 QPM SCH Normal maize Q PM 2. Baby corn, Sweet corn, popcorn single cross hybrids available 3. Technology for Single Cross Hybrid Seed Production and commercial cultivation for normal QPM and specialty corn Sweet corn hybrid HSC-1 Pop corn hybrid Hyd 14-3 X HKIPC5 SCH Seed production Value added Dream-RICE • High iron rice (after polishing) Provitamin A rice Other micronutrient-rich rice Development of Value added rice for both favorable and unfavorable ecosystems. combination of high yield with value-added rice Green revolution saved famine in Asia Molecular breeding for Nutrition food may help in reducing malnutrition provided FTO (Govt supp.) is in place