Nematode Genome Announcement: A Draft Genome for Rice Root-Knot Nematode,

Sl. no.	Nematode	Sequencing platform	Assembly approach/assembler/assembly-pipeline			N50 value (kbp)	CEGMA score (complete/partial %) or complete%	Reference	Year
1	Meloidogyne incognita	Sanger, ABI3730x1 DNA analyzer	De-novo, Arachne	86.1	2,995	62.5	77/80.6	Abad et al. (2008)	2008
2	Meloidogyne hapla	ABI3730, megabase dequence analyzer	De-novo, Arachne v2.0.1	53.0	3,452	37.6	94.8/96.8	Opperman et al. (2008)	2008
3	Bursaphelenchus xylophilus	454 FLX, illumina GAI	De-novo, Newbler v2.3, Velvet v 1.0.12, AbacasII, IMAGE, iCORN	74.6	5,527	949.8	97.6/98.4	Kikuchi et al. (2011)	2011
4	Meloidogyne floridensis	Illumina HiSeq2000	De-novo, Velvet v1.1.04	96.7	58,696	3.7	58.1/77.4	Lunt et al. (2014)	2014
5	Globodera pallida	ABI 3730 Capillary DNA Analyser, 454 GS-20 and GS-FLX sequencer, Illumina GAIIx	De-novo, Celera, Newbler, Abyss v1.2.7, SSPACE v1	124.6	6,873	122	74.19/80.65	Cotton et al. (2014)	2014
6	Pratylenchus coffeae	Roche 454	De-novo, Newbler	19.7	5,821	10	NA	Burke et al. (2015)	2015
7	Globodera rostochiensis	Illumina HiSeq2000	De-novo, SGA v0.9.7, Velvet v1.3.7, SSPACE, Gapfiller	95.9	4,377	89	93.55/95.56	Eves-van den Akker et al. (2016)	2016
8	Meloidogyne enterolobii	Illumina L30	De-novo, Platanus	162.4	46,090	9.2	81 /NA	Szitenberg et al. (2017)	2017
9	Meloidogyne floridensis	Illumina SJF1	De-novo, Platanus	74.9	9,134	13.2	84	Szitenberg et al. (2017)	2017
10	Meloidogyne incognita	Illumina W1	De-novo, Platanus	122.1	33,735	16.4	83	Szitenberg et al. (2017)	2017
11	Globodera ellingtonae	HISeq, MiSeq, PacBio	De-novo assembler Allpaths-LG, PBJelly	119.1	2,248	360	92/96	Phillips et al. (2017)	2017
12	Meloidogyne javanica	Illumina VW4	De-novo, Platanus	142.6	34,394	14.2	90	Szitenberg et al. (2017)	2017
13	Meloidogyne arenaria	Illumina HarA	De-novo, Platanus	163.7	46,509	10.5	91	Szitenberg et al. (2017)	2017
14	Ditylenchus destructor	Illumina HiSeq2500, PacBio RSII	De-novo, ALLPATHS-LG, SSPACE, pb-jelly, Gapfiller	112	1,761	570	91	Zheng et al. (2016)	2016
15	Meloidogyne incognita	454, Illumina HiSeq2000	De-novo, MIRA, SSPACE, GapCloser (SOAPdenovo 2)	183.5	12,091	38.6	97	Blanc-Mathieu et al. (2017)	2017
16	Meloidogyne javanica	454, Illumina HiSeq2000	De-novo, MIRA, SSPACE, GapCloser (SOAPdenovo 2)	256.3	31,341	10.4	96	Blanc-Mathieu et al. (2017)	2017
17	Meloidogyne arenaria	454, Illumina HiSeq2000	De-novo, MIRA, SSPACE, GapCloser (SOAPdenovo 2)	235.5	26,196	16.4	95	Blanc-Mathieu et al. (2017)	2017
18	Meloidogyne graminicola	Illumina GAIIx	De-novo, Platanus, Redundans	38.18	4,304	20.4	84.27/90.73	This study	2018

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Nematode Genome Announcement: A Draft Genome for Rice Root-Knot Nematode, Meloidogyne graminicola

Article Category: research-article

Pubblicato online: 03 giu 2018

Pagine: 111 - 116

DOI: https://doi.org/10.21307/jofnem-2018-018

Parole chiaveRice root-knot nematode, Genomics, Draft genome, Sequencing, Illumina GAIIx

© 2018 Vishal Singh Somvanshi et al., published by Sciendo

This work is licensed under the Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International License.

A comparison of Meloidogyne graminicola genome information with the published plant-parasitic nematode genomes.

Parole chiave
Rice root-knot nematode, Genomics, Draft genome, Sequencing, Illumina GAIIx