Analyses of the rice (Oryza spp.) transcriptome during infection with the root-knot nematode (Meloidogyne graminicola)

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Fernandez, Diana; Petitot, Anne-Sophie; Dereeper, Alexis, 2022, "Analyses of the rice (Oryza spp.) transcriptome during infection with the root-knot nematode (Meloidogyne graminicola)", https://doi.org/10.23708/1VFBVT, DataSuds, V1, UNF:6:QdPgnoH1UIS4e41AVlHNbw== [fileUNF]
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Description

The root-knot nematode Meloidogyne graminicola is responsible for production losses in rice (Oryza sativa) in Asia and Latin America. The accession TOG5681 of African rice, O. glaberrima, presents improved resistance to several biotic and abiotic factors, including nematodes. The aim of this study was to assess the molecular mechanisms underlying nematode resistance or susceptibility in rice plants.

Rice molecular responses to M. graminicola were assessed by root transcriptome profiling at several days post- infection (dpi). For the susceptible host (O. sativa Nipponbare), RNA-seq data were obtained from 10 libraries coming from two biological replicates (1 and 2) of the following samples: mock-inoculated rice root tips as plant controls (NipC) and M. graminicola-infected rice root tips collected at 2 dpi, 4 dpi, 8 dpi, 12 dpi or 16 dpi (Nip2dpi, Nip4dpi, Nip8dpi, Nip12dpi, Nip16dpi). For the resistant accession (Oryza glaberrima TOG5681), RNA-seq data were obtained from 8 libraries coming from two biological replicates (1 and 2) of the following samples: mock-inoculated rice root tips as plant controls (TogC) and M. graminicola infected rice root tips collected at 2 dpi, 4 dpi, and 8 dpi (Tog2dpi, Tog4dpi, Tog8dpi).

This study provides a novel set of candidate genes for rice resistance to nematodes and highlights the rice-M. graminicola pathosystem as a model to study plant-nematode incompatible interactions.

(2022-12-20)
Subject Agricultural Sciences
Related Publication Petitot, A.-S. et al. (2017) « Transcriptomic and histological responses of African rice (Oryza glaberrima) to Meloidogyne graminicola provide new insights into root-knot nematode resistance in monocots », Annals of Botany,119 (5): 885-899. Oxford University Press (OUP). doi: 10.1093/aob/mcw256
Notes Data type: Analysis data
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DataSuds_1VFBVT_dataset_summary.txt
Meloidogyne_graminicola/Plain Text - 2.7 KB
Published Dec 23, 2022
4 Downloads
MD5: fd4d0b324aab973b0db812a4745a77e4
Dataset citation, description and file list
Documentation
EdgeR_OrysaRetS_2a8dpi.tab
Meloidogyne_graminicola/Tabular Data - 23.2 MB
Published Dec 23, 2022
4 Downloads
40 Variables, 55986 Observations UNF:6:6TdpbH6boxsC/lGc0eDsGA==
Differential gene expression in Oryza sativa (Nipponbarre) and Oryza glaberrima (TOG5681) at 2, 4, and 8 days after infection with the root-knot nematode Meloidogyne graminicola [Excel format]
Data
EdgeR_Osativa_2a16dpi.tab
Meloidogyne_graminicola/Tabular Data - 8.4 MB
Published Dec 23, 2022
4 Downloads
26 Variables, 55986 Observations UNF:6:WGTRzIudb5vo+urhLeUWPw==
Differential gene expression in Oryza sativa (Nipponbarre) at 2, 4, 8, 12 and 16 days after infection with the root-knot nematode Meloidogyne graminicola [Excel format]
Data
Nipponbare_Mgraminicola_htseqcount.tab
Meloidogyne_graminicola/Tabular Data - 2.7 MB
Published Dec 23, 2022
4 Downloads
13 Variables, 55986 Observations UNF:6:sVoUBUjXN63uMbhJP4mGuw==
Counts data of Oryza sativa (Nipponbarre) gene expression after infection with the root-knot nematode Meloidogyne graminicola
Data
TOG5681_Mgraminicola_htseqcount.tab
Meloidogyne_graminicola/Tabular Data - 2.1 MB
Published Dec 23, 2022
4 Downloads
9 Variables, 55986 Observations UNF:6:bAf8x9FEAFp156gwRrPU0w==
Counts data of Oryza glaberrima (TOG5681) gene expression after infection with the root-knot nematode Meloidogyne graminicola
Data
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