Spatial effects and GWA mapping of root colonization assessed in the interaction between the rice diversity panel 1 and an arbuscular mycorrhizal fungus

Lancaster Environment Centre

Text available via DOI:

https://doi.org/10.3389/fpls.2019.00633
Final published version

Keywords

Common mycorrhizal network, Glomus intraradices, GWA mapping, Oryza sativa, QTL, Rhizophagus irregularis

View graph of relations

Research output: Contribution to Journal/Magazine › Journal article › peer-review

Published

Standard

Spatial effects and GWA mapping of root colonization assessed in the interaction between the rice diversity panel 1 and an arbuscular mycorrhizal fungus. / Davidson, Hazel; Shrestha, Roshi; Cornulier, Thomas et al.
In: Frontiers in Plant Science, Vol. 10, 17.05.2019, p. 633.

Research output: Contribution to Journal/Magazine › Journal article › peer-review

Bibtex

@article{d332fc9d166d4e60bf0223d540c6ad5d,

title = "Spatial effects and GWA mapping of root colonization assessed in the interaction between the rice diversity panel 1 and an arbuscular mycorrhizal fungus",

abstract = "If water saving methods of rice management are to be adopted, the interaction between rice plants and arbuscular mycorrhizal (AM) fungi will grow in agronomic significance. As yet there are very few studies on the interaction between rice and AM fungi and none on host genetics. A subset 334 cultivars from the Rice Diversity Panel 1 were grown in 250 L boxes filled with phosphorus (P) deficient aerobic soil without addition, with added rock phosphate and with rock phosphate and the AM fungus Rhizophagus irregularis. Statistical analysis of position of plants revealed a positive effect of their neighbors on their dry weight which was stronger in the presence of rock phosphate and even stronger with rock phosphate and AM fungi. A weak but significant difference in the response of cultivars to AM fungus treatment in terms of shoot dry weight (SDW) was revealed. Neighbor hyphal colonization was positively related to a plant{\textquoteright}s hyphal colonization, providing insights into the way a network of AM fungi interact with multiple hosts. Hyphal colonization ranged from 21 to 89%, and 42% of the variation was explained by rice genotype. Colonization was slightly lower in aus cultivars than other rice subgroups and high in cultivars from the Philippines. Genome wide association (GWA) mapping for hyphal colonization revealed 23 putative quantitative trait loci (QTLs) indicating there is an opportunity to investigate the impact of allelic variation in rice on AM fungal colonization. Using published transcriptomics data for AM response in rice, some promising candidate genes are revealed under these QTLs being a calcium/calmodulin serine/threonine protein kinase at 4.9 Mbp on chromosome 1, two ammonium transporters genes at 24.6 Mbp on chromosome 2 and a cluster of subtilisin genes at 1.2 Mbp on chromosome 4. Future studies should concentrate on the biological significance of genetic variation in rice for AM colonization.",

keywords = "Common mycorrhizal network, Glomus intraradices, GWA mapping, Oryza sativa, QTL, Rhizophagus irregularis",

author = "Hazel Davidson and Roshi Shrestha and Thomas Cornulier and Alex Douglas and Tony Travis and David Johnson and Price, {Adam H.}",

note = "M1 - 633",

year = "2019",

month = may,

day = "17",

doi = "10.3389/fpls.2019.00633",

language = "English",

volume = "10",

pages = "633",

journal = "Frontiers in Plant Science",

issn = "1664-462X",

publisher = "Frontiers Media S.A.",

}

RIS

TY - JOUR

T1 - Spatial effects and GWA mapping of root colonization assessed in the interaction between the rice diversity panel 1 and an arbuscular mycorrhizal fungus

AU - Davidson, Hazel

AU - Shrestha, Roshi

AU - Cornulier, Thomas

AU - Douglas, Alex

AU - Travis, Tony

AU - Johnson, David

AU - Price, Adam H.

N1 - M1 - 633

PY - 2019/5/17

Y1 - 2019/5/17

N2 - If water saving methods of rice management are to be adopted, the interaction between rice plants and arbuscular mycorrhizal (AM) fungi will grow in agronomic significance. As yet there are very few studies on the interaction between rice and AM fungi and none on host genetics. A subset 334 cultivars from the Rice Diversity Panel 1 were grown in 250 L boxes filled with phosphorus (P) deficient aerobic soil without addition, with added rock phosphate and with rock phosphate and the AM fungus Rhizophagus irregularis. Statistical analysis of position of plants revealed a positive effect of their neighbors on their dry weight which was stronger in the presence of rock phosphate and even stronger with rock phosphate and AM fungi. A weak but significant difference in the response of cultivars to AM fungus treatment in terms of shoot dry weight (SDW) was revealed. Neighbor hyphal colonization was positively related to a plant’s hyphal colonization, providing insights into the way a network of AM fungi interact with multiple hosts. Hyphal colonization ranged from 21 to 89%, and 42% of the variation was explained by rice genotype. Colonization was slightly lower in aus cultivars than other rice subgroups and high in cultivars from the Philippines. Genome wide association (GWA) mapping for hyphal colonization revealed 23 putative quantitative trait loci (QTLs) indicating there is an opportunity to investigate the impact of allelic variation in rice on AM fungal colonization. Using published transcriptomics data for AM response in rice, some promising candidate genes are revealed under these QTLs being a calcium/calmodulin serine/threonine protein kinase at 4.9 Mbp on chromosome 1, two ammonium transporters genes at 24.6 Mbp on chromosome 2 and a cluster of subtilisin genes at 1.2 Mbp on chromosome 4. Future studies should concentrate on the biological significance of genetic variation in rice for AM colonization.

AB - If water saving methods of rice management are to be adopted, the interaction between rice plants and arbuscular mycorrhizal (AM) fungi will grow in agronomic significance. As yet there are very few studies on the interaction between rice and AM fungi and none on host genetics. A subset 334 cultivars from the Rice Diversity Panel 1 were grown in 250 L boxes filled with phosphorus (P) deficient aerobic soil without addition, with added rock phosphate and with rock phosphate and the AM fungus Rhizophagus irregularis. Statistical analysis of position of plants revealed a positive effect of their neighbors on their dry weight which was stronger in the presence of rock phosphate and even stronger with rock phosphate and AM fungi. A weak but significant difference in the response of cultivars to AM fungus treatment in terms of shoot dry weight (SDW) was revealed. Neighbor hyphal colonization was positively related to a plant’s hyphal colonization, providing insights into the way a network of AM fungi interact with multiple hosts. Hyphal colonization ranged from 21 to 89%, and 42% of the variation was explained by rice genotype. Colonization was slightly lower in aus cultivars than other rice subgroups and high in cultivars from the Philippines. Genome wide association (GWA) mapping for hyphal colonization revealed 23 putative quantitative trait loci (QTLs) indicating there is an opportunity to investigate the impact of allelic variation in rice on AM fungal colonization. Using published transcriptomics data for AM response in rice, some promising candidate genes are revealed under these QTLs being a calcium/calmodulin serine/threonine protein kinase at 4.9 Mbp on chromosome 1, two ammonium transporters genes at 24.6 Mbp on chromosome 2 and a cluster of subtilisin genes at 1.2 Mbp on chromosome 4. Future studies should concentrate on the biological significance of genetic variation in rice for AM colonization.

KW - Common mycorrhizal network

KW - Glomus intraradices

KW - GWA mapping

KW - Oryza sativa

KW - QTL

KW - Rhizophagus irregularis

U2 - 10.3389/fpls.2019.00633

DO - 10.3389/fpls.2019.00633

M3 - Journal article

C2 - 31156686

VL - 10

SP - 633

JO - Frontiers in Plant Science

JF - Frontiers in Plant Science

SN - 1664-462X

ER -

Research

Links

Text available via DOI:

Keywords