Home Feedback Contact

      A platform of genetics and genomics

                             analysis and application in Nicotiana

 

The information of Nicotiana genome is obtained from the follow published articles.

 

Bombarely A, Rosli H G, Vrebalov J, et al. A draft genome sequence of Nicotiana benthamiana to enhance molecular plant-microbe biology research. Molecular Plant-Microbe Interactions, 2012, 25(12): 1523-1530.

 

Sierro N, Battey J N D, Ouadi S, et al. The tobacco genome sequence and its comparison with those of tomato and potato. Nature communications, 2014, 5.

 

Sierro N, Battey J N D, Ouadi S, et al. Reference genomes and transcriptomes of Nicotiana sylvestris and Nicotiana tomentosiformis. Genome biology, 2013, 14(6): 1.

 

Xu S, Brockmöller T, Navarroquezada A, et al. Wild tobacco genomes reveal the evolution of nicotine biosynthesis. Proc Natl Acad Sci U S A, 2017.


The source of Nicotiana genomes

Download

Species Source
Sol-genomics NCBI 
N.benthamiana Sol_Nben_link NCBI_Nben_link
N.otophora Sol_Noto_link NCBI_Noto_link
N.tabacum BX Sol_NtBX_link NCBI_NtBX_link
N.tabacum K326 Sol_NtK326_link NCBI_NtK326_link
N.tabacum TN90 Sol_NtTN90_link NCBI_NtTN90_link
N.sylvestris Sol_Nsyl_link NCBI_Nsyl_link
N.tomentosiformis Sol_Nsyl_link NCBI_Nsyl_link

 


The detail information of Nicotiana benthamiana

Download

Assembly statistics Contigs Scaffolds
Total assembly size 2.46 Gb 2.63 Gb
Total assembled sequences 461,463 141,339
Longest sequence length 208.21 Kb 615.59 Kb
Average sequence length 5,336 bp 18,610 bp
N90 indexb 163,000 sequences 30,261 sequences
N90 length 3,403 bp 23,201 bp
N50 index 42,984 sequences 8,897 sequences
N50 length 16,480 bp 89,778 bp

 


The detail information of Nicotiana sylvestris and Nicotiana tomentosiformis

Download

Statistics N. sylvestris N. tomentosiformis
Sequences 253,984 159,649
Average length (bp) 8,748.83 10,576.84
Maximum length (bp) 698,072 789,565
N50 length (bp) 79,724 82,598
Total length (bp) 2,222,062,302 1,688,581,715
Undefined bases 174,351,674 (7.8%) 45,955,292 (2.7%)
Genome coverage 82.90% 71.60%

 


The detail information of Nicotiana otophora,Nicotiana tabacum BX,Nicotiana tabacum K326 and Nicotiana tabacum TN90

Download

Statistic N. tabacum K326 N. tabacum TN90 N. tabacum BX N. otophora
Sequencing coverage 38x 49x 29x 66x
Contigs 711,416 478,142 797,404 1,120,175
Scaffolds 582,565 351,740 643,545 927,926
Superscaffolds 375,007 245,935 411,325 ND
Average length (bp) 9,954 15,121 9,082 2,901
Maximum length (bp) 3,856,062 3,846,415 3,726,272 1,052,670
N50 length (bp) 345,167 385,886 350,983 27,928
Total length (bp) 3,732,635,995 3,718,833,281 3,735,815,445 2,692,099,598
Undefined bases 134,062,984 (3.6%) 105,854,533 (2.8%) 182,189,689 (4.9%) 215,452,715 (8.0%)
Genome size (Gb) 4.6 4.41 4.57 2.7
Genome coverage 81.10% 73.10% 81.80% 99.70%
Repeat content 73.10% 78.90% 72.70% ND

 

 

Copyright©2017 : Shandong Agricultural University : SDAU PostCode: 271018

Please contact: Long Yang