Harnessing the power of NGS technique for unraveling arbuscular mycorrhiza community structure in some Sudanese sorghum genotypes

Transcription

1 Harnessing the power of NGS technique for unraveling arbuscular mycorrhiza community structure in some Sudanese sorghum genotypes Tilal Sayed Abdelhalim Agricultural Research Corporation, Wad Medani, Sudan Capetown 9 th April 2018

2 General outline 1 Sorghum, as an imporant crop to the Sudanese nation Factors affecting sorghum productivity in Sudan Arbuscular mycorrhiza fungi (AMF) as planet restorer Methodology and conclusions Away ahead

3 Sorghum crop in Sudan 2 Backbone (agriculture sector in Sudan) In Sudan named as Aish means life ~10 million ha under cultivation (1 t/ha -1 ) Source:

4 Sorghum grain uses 3 Bitter-Sweet Hulu-Mur, Ramadan soft drink Leavened breed Kisra Source: Sorghum porridge Asida

5 No. released Sudanese sorghum cultivars ( ) 4

6 Wild sorghum: The forgotten treasure-trove in the Sudan 5 Huge genetic diversity

7 Sorghum crop in Sudan 6

8 Sorghum production (kg/ha) 7

9 Facors affecting sorghum productivity in Sudan 8 Sever drought symptoms

10 Facors limiting sorghum productivity in Sudan 9

11 Lack of awareness 10

12 Integrated Striga control 11

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14 13 Heat and Cold Stress Salinity Stress Drought Stress Mycorrhizas

15 Justification 14 AMF species and diversity are important factors affecting biodiversity and ecosystem productivity AMF species and diversity may be different among sorghum genotypes because of the genotype specificity to AMF. To our knowledge, no much information describing AMF diversity in across Sudanese sorghum genotypes are available

16 Objectives 15 Examine the AMF species and diversity of sorghum genotypes by metageomic analysis. Estimate the relationship between AMF diversity and phenotypic traits of sorghum genotypes. Estimate AMF specificity of sorghum genotypes using metageomic analysis.

17 Experimental site White Nile Research Farm, White Nile State, Kosti, Sudan ( N, E; Altitude: 410 m) Mean annual precipitation: 270 mm R1 R2 R3 16 Mean annual temperature: 28.4⁰C 20 cm Genotype cm Genotype Genotype

18 Experimental setup Sorghum genotypes 20 sorghum genotypes 17 Phosphorus treatments Without P (Control) Design RCBD with 3 replicates Parameters need to be measured Plant biomass data Grain yield data Mycorrrhiza diversity Metagenomic techniques (Next generation sequencing (NGS)

19 AMF_Phosphorus use efficiency screening experiments (root sampling) 18

20 List of genotypes used 19 Local names Category origin of source lines Grain color Race Morphological group AG-8 Released Sudan Spotted white Durra- Caudatum Feterita Ajabsedo Landrace Sudan White Caudatum Feterita Azabiatarbala Landrace Sudan Red Durra- Caudatum Hegiri Bashaeir Released Sudan White Caudatum-Kafir Feterita CK60A Plant introduction USA Yellow Kafir Egoal Landrace Sudan White Caudatum Feterita Faki-Mustahi Landrace Sudan Creamy Dura Milo F.HSD 6420 Landrace Sudan Spotted white Caudatum Feterita F.HSD 6536 Landrace Sudan Spotted white Caudatum Feterita Gasabi Landrace Sudan White Caudatum-Kafir Feterita HazazToker Landrace Sudan Yellow Durra- Caudatum Milo Herra Landrace Sudan White Caudatum Feterita IS4225 Plant introduction China Yellow Kaoliang Safra Landrace Sudan Yellow Dura Milo Sh. Ninga Landrace Sudan Red Durra- Caudatum Hegiri Tetron Landrace Sudan White Caudatum-Kafir Hegiri Wad-Farkh Landrace Sudan Red Caudatum Feterita Zahratelgadambalia Landrace Sudan White Caudatum Feterita Zinariabyad Landrace Sudan Buff Durra- Caudatum Milo 20 is missing

21 Eperimental setup 20 Root samples collecting Surface sterilization DNA extraction DNeasy Plant Mini Kit PCR SSU rdna of AMF PCR products purification AMPure Sequencing Ion PGM Data analysis for classification and identification of sequences QIIME pipeline with database of MaarjAM

22 LQIIME pipeline with database of MaarjAM 21

23 Data analysis 20 AMF species composition AMF richness (diversity) Relationship between AMF diversity and sorghum genotypes Regression analysis AMF specificity of sorghum genotypes Non-metric multidimensional scaling (NMDS) Permutational multivariate analysis of variance (PerMANOVA).

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27 Relative abundance (%) of AMF species 21 Aim1- AMF species and diversity of sorghum genotypes

28 Percentage AMF OTUs at family level 22

29 Aim3 AMF specificity of sorghum genotypes: 25 There was no significant differences in AMF community among genotypes at OTU level.

30 AMF species and diversity of sorghum genotypes 23 AMF richness of some Sudanese sorghum genotypes

31 Conclusion 26 It is a clear evident that the family Glomeraceae and genus Glomus are predominantly in AMF community at the research site in Sudan. The genotypes Azabia and Zin. abyed were shown to be highly compatible to AMF and may be useful genotypes to combine with mycorrhizal application. The current experiment setup showed that there was no AMF specificity among sorghum genotypes at OTU level.

32 Number of tillers/plant 100 seed weight (g) Relationship between AMF diversity and phenotypic traits R 2 = 0.41 P = R 2 = 0.25 P = Zin. abyed Azabia Number of AMF species Number of AMF species 32

33 Take home message Focusing on wild relatives of sorghum

34 Thank you

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