IMA Fungus ( IF 5.4 ) Pub Date : 2021-09-21 , DOI: 10.1186/s43008-021-00080-0 Conrad Trollip 1, 2 , Angus J Carnegie 3 , Quang Dinh 2 , Jatinder Kaur 2 , David Smith 4 , Ross Mann 2 , Brendan Rodoni 1, 2 , Jacqueline Edwards 1, 2
Following the publication of the original article (Trollip et al. 2021), we were notified that there was a missing column at the end of the first section of Table 3, which included the genome information for one of the genomes generated in this study (Ophiostoma angusticollis – Genome Accession JADHKL000000000).
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Originally published table:
Table 3 Genome summary statistics of representative ophiostomatoid isolates sequenced in this study
Species Ceratocystiopsis Graphilbum Leptographium s. l Ceratocystiopsis sp. G. fragrans G. ipis-grandicollis sp. nov G. cf. rectangulosporium Gro. huntii Gro. radiaticola Taxon Taxon 1 Taxon 2 Taxon 3 Taxon 4 Taxon 5 Taxon 6 Sequenced strain VPRI43766 VPRI43528 VPRI43762 VPRI43763 VPRI43530 VPRI43523 GenBank Accession JADHKF010000000 JADHKG010000000 JADHKH010000000 JADHKI010000000 JADHKJ010000000 JADHKK010000000 Total reads after QC 27,063,242 50,135,289 49,429,518 46,778,484 94,294,776 114,599,394 Number of scaffolds 79 237 178 117 254 85 Longest contig (Mb) 1.54 999,956 1,555,217 1,343,814 1,099,032 2,583,828 Est. genome size (Mb) 20.45 34.04 24.02 23.61 28.05 27.56 N50 (bp) 471,680 323,198 601,306 298,270 343,842 883,760 L50 12 32 13 22 25 11 # N's per 100 kbp 10 7 14 6 8 5 GC (%) 61.48 55.75 55.53 60.91 54.63 57.09 Avg. coverage depth 197 218 305 296 493 619 No. of predicted genes 6967 9034 7221 7270 7836 7867 Est. gene density 341 265 301 308 279 286 Complete BUSCO (%) 95.20 97.10 95.60 95.70 97.40 96.40 Complete BUSCO (n) 3636 3706 3647 3651 3716 3680 Complete—single 3631 3699 3644 3648 3710 3673 Complete—duplicated 5 7 3 3 6 7 Fragmented 17 23 29 18 17 21 Missing 164 88 141 148 84 116 Species Ophiostoma s. l Raffaelea Sporothrix Graphium O. fasciatum O. ips O. pallidulum R. deltoideospora S. euskadiensis S. cf. nigrograna S. pseudoabietina Graphium sp. Taxon Taxon 8 Taxon 9 Taxon 10 Taxon 11 Taxon 12 Taxon 13 Taxon 14 Taxon 15 Sequenced strain VPRI43845 VPRI43529 VPRI43846 VPRI43720 VPRI43754 VPRI43755 VPRI43531 VPRI43844 GenBank Accession JADHKM010000000 JADHKN010000000 JADHKO010000000 JADHKP010000000 JADHKQ010000000 JADHKR010000000 JADHKS010000000 JADHKT010000000 Total reads after QC 51,287,508 37,261,588 36,666,452 35,927,882 29,627,312 37,781,794 36,719,768 28,160,580 Number of scaffolds 36 208 473 120 92 125 51 490 Longest contig (Mb) 2,360,849 1,117,630 543,815 1,965,135 1,881,930 1,307,617 3,412,636 1,008,604 Est. genome size (Mb) 22.54 26.01 32.66 30.95 36.13 27.34 35.20 31.65 N50 (bp) 966,108 283,044 126,120 416,364 790,753 398,989 1,285,428 190,968 L50 9 29 84 25 16 23 9 49 # N's per 100 kbp 4 8 12 18 11 12 8 12 GC (%) 65.26 56.88 57.93 54.55 52.70 59.54 53.27 50.12 Avg. coverage depth 341 209 167 173 122 205 154 132 No. of predicted genes 7498 7470 8757 7428 9348 7908 9190 9482 Est. gene density 333 287 268 240 259 289 261 300 Complete BUSCO (%) 96.60 96.90 97.20 94.90 98.10 97.20 97.80 96.60 Complete BUSCO (n) 3688 3696 3710 3621 3743 3710 3734 3686 Complete—single 3685 3690 3705 3613 3739 3703 3729 3679 Complete—duplicated 3 6 5 8 4 7 5 7 Fragmented 16 16 28 30 10 23 12 40 Missing 113 105 79 166 64 84 71 91 -
Corrected table:
Table 3 Genome summary statistics of representative ophiostomatoid isolates sequenced in this study
Species Ceratocystiopsis Graphilbum Leptographium s. l Ophiostoma s. l Ceratocystiopsis sp. G. fragrans G. ipis-grandicollis sp. nov G. cf. rectangulosporium Gro. huntii Gro. radiaticola O. angusticollis Taxon Taxon 1 Taxon 2 Taxon 3 Taxon 4 Taxon 5 Taxon 6 Taxon 7 Sequenced strain VPRI43766 VPRI43528 VPRI43762 VPRI43763 VPRI43530 VPRI43523 VPRI43764 GenBank Accession JADHKF010000000 JADHKG010000000 JADHKH010000000 JADHKI010000000 JADHKJ010000000 JADHKK010000000 JADHKL010000000 Total reads after QC 27,063,242 50,135,289 49,429,518 46,778,484 94,294,776 114,599,394 10,454,088 Number of scaffolds 79 237 178 117 254 85 317 Longest contig (Mb) 1,540,000 999,956 1,555,217 1,343,814 1,099,032 2,583,828 651,020 Est. genome size (Mb) 20.45 34.04 24.02 23.61 28.05 27.56 23.80 N50 (bp) 471,680 323,198 601,306 298,270 343,842 883,760 236,362 L50 12 32 13 22 25 11 34 # N's per 100 kbp 10 7 14 6 8 5 14 GC (%) 61.48 55.75 55.53 60.91 54.63 57.09 57.89 Avg. coverage depth 197 218 305 296 493 619 61 No. of predicted genes 6967 9034 7221 7270 7836 7867 8022 Est. gene density 341 265 301 308 279 286 337 Complete BUSCO (%) 95.20 97.10 95.60 95.70 97.40 96.40 96.60 Complete BUSCO (n) 3636 3706 3647 3651 3716 3680 3686 Complete—single 3631 3699 3644 3648 3710 3673 3680 Complete—duplicated 5 7 3 3 6 7 6 Fragmented 17 23 29 18 17 21 18 Missing 164 88 141 148 84 116 113 Species Ophiostoma s. l Raffaelea Sporothrix Graphium O. fasciatum O. ips O. pallidulum R. deltoideospora S. euskadiensis S. cf. nigrograna S. pseudoabietina Graphium sp. Taxon Taxon 8 Taxon 9 Taxon 10 Taxon 11 Taxon 12 Taxon 13 Taxon 14 Taxon 15 Sequenced strain VPRI43845 VPRI43529 VPRI43846 VPRI43720 VPRI43754 VPRI43755 VPRI43531 VPRI43844 GenBank Accession JADHKM010000000 JADHKN010000000 JADHKO010000000 JADHKP010000000 JADHKQ010000000 JADHKR010000000 JADHKS010000000 JADHKT010000000 Total reads after QC 51,287,508 37,261,588 36,666,452 35,927,882 29,627,312 37,781,794 36,719,768 28,160,580 Number of scaffolds 36 208 473 120 92 125 51 490 Longest contig (Mb) 2,360,849 1,117,630 543,815 1,965,135 1,881,930 1,307,617 3,412,636 1,008,604 Est. genome size (Mb) 22.54 26.01 32.66 30.95 36.13 27.34 35.20 31.65 N50 (bp) 966,108 283,044 126,120 416,364 790,753 398,989 1,285,428 190,968 L50 9 29 84 25 16 23 9 49 # N's per 100 kbp 4 8 12 18 11 12 8 12 GC (%) 65.26 56.88 57.93 54.55 52.70 59.54 53.27 50.12 Avg. coverage depth 341 209 167 173 122 205 154 132 No. of predicted genes 7498 7470 8757 7428 9348 7908 9190 9482 Est. gene density 333 287 268 240 259 289 261 300 Complete BUSCO (%) 96.60 96.90 97.20 94.90 98.10 97.20 97.80 96.60 Complete BUSCO (n) 3688 3696 3710 3621 3743 3710 3734 3686 Complete—single 3685 3690 3705 3613 3739 3703 3729 3679 Complete—duplicated 3 6 5 8 4 7 5 7 Fragmented 16 16 28 30 10 23 12 40 Missing 113 105 79 166 64 84 71 91
The original article has been corrected.
Trollip C et al (2021) Ophiostomatoid fungi associated with pine bark beetles and infested pines in south-eastern Australia, including Graphilbum ipis-grandicollis sp. nov. IMA Fungus 12:24. https://doi.org/10.1186/s43008-021-00076-w
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School of Applied Systems Biology, La Trobe University, Bundoora, VIC, 3083, Australia
Conrad Trollip, Brendan Rodoni & Jacqueline Edwards
Department of Jobs, Precincts and Regions, Agriculture Victoria Research, AgriBio Centre, Bundoora, VIC, 3083, Australia
Conrad Trollip, Quang Dinh, Jatinder Kaur, Ross Mann, Brendan Rodoni & Jacqueline Edwards
Forest Science, NSW Department of Primary Industries – Forestry, Parramatta, NSW, 2150, Australia
Angus J. Carnegie
Department of Jobs, Precincts and Regions, Biosecurity and Agricultural Services, Agriculture Victoria, Cranbourne, VIC, 3977, Australia
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Trollip, C., Carnegie, A.J., Dinh, Q. et al. Correction to: Ophiostomatoid fungi associated with pine bark beetles and infested pines in south-eastern Australia, including Graphilbum ipis‑grandicollis sp. nov. IMA Fungus 12, 27 (2021). https://doi.org/10.1186/s43008-021-00080-0
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更正:与澳大利亚东南部的松树皮甲虫和受侵染的松树有关的蛇口真菌,包括 Graphilbum ipis-grandicollis sp。十一月
在原始文章 (Trollip et al. 2021) 发表后,我们被告知在表 3 的第一部分末尾缺少一列,其中包括本研究中生成的一个基因组的基因组信息( Ophiostoma angusticollis – 基因组编号 JADHKL000000000)。
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最初发布的表:
表 3本研究测序的代表性鬼口类分离株的基因组汇总统计
物种 角囊藻 石墨烯 Leptographium s. 升 Ceratocystiopsis sp. 香菇 G. ipis-grandicollis sp. 十一月 G. 参见 直角孢子菌 格罗。亨蒂 格罗。放射线虫 分类单元 分类单元 1 分类单元 2 分类单元 3 分类单元 4 分类单元 5 分类单元 6 测序菌株 VPRI43766 VPRI43528 VPRI43762 VPRI43763 VPRI43530 VPRI43523 基因库加入 JADHKF010000000 JADHKG010000000 JADHKH010000000 JADHKI010000000 JADHKJ010000000 JADHKK010000000 QC 后的总读数 27,063,242 50,135,289 49,429,518 46,778,484 94,294,776 114,599,394 脚手架数量 79 237 178 117 254 85 最长重叠群 (Mb) 1.54 999,956 1,555,217 1,343,814 1,099,032 2,583,828 美东时间。基因组大小 (Mb) 20.45 34.04 24.02 23.61 28.05 27.56 N50 (bp) 471,680 323,198 601,306 298,270 343,842 883,760 L50 12 32 13 22 25 11 # N 每 100 kbp 10 7 14 6 8 5 GC (%) 61.48 55.75 55.53 60.91 54.63 57.09 平均 覆盖深度 197 218 305 296 493 619 预测基因数 6967 9034 7221 7270 7836 7867 美东时间。基因密度 341 265 301 308 279 286 完成 BUSCO (%) 95.20 97.10 95.60 95.70 97.40 96.40 完成 BUSCO (n) 3636 3706 3647 3651 3716 3680 完整——单人 3631 3699 3644 3648 3710 3673 完整——重复 5 7 3 3 6 7 支离破碎的 17 23 29 18 17 21 丢失的 164 88 141 148 84 116 物种 眼袋 s. 升 拉斐尔 孢子丝菌 石墨 O. fasciatum O.ips 苍白球藻 R. deltoideospora 桉树 S. 参见 黑麦 假枞树 石墨属 分类单元 分类单元 8 分类单元 9 分类单元 10 分类单元 11 分类单元 12 分类单元 13 分类单元 14 分类单元 15 测序菌株 VPRI43845 VPRI43529 VPRI43846 VPRI43720 VPRI43754 VPRI43755 VPRI43531 VPRI43844 基因库加入 JADHKM010000000 JADHKN010000000 JADHKO010000000 JADHKP010000000 JADHKQ010000000 JADHKR010000000 JADHKS010000000 JADHKT010000000 QC 后的总读数 51,287,508 37,261,588 36,666,452 35,927,882 29,627,312 37,781,794 36,719,768 28,160,580 脚手架数量 36 208 473 120 92 125 51 490 最长重叠群 (Mb) 2,360,849 1,117,630 543,815 1,965,135 1,881,930 1,307,617 3,412,636 1,008,604 美东时间。基因组大小 (Mb) 22.54 26.01 32.66 30.95 36.13 27.34 35.20 31.65 N50 (bp) 966,108 283,044 126,120 416,364 790,753 398,989 1,285,428 190,968 L50 9 29 84 25 16 23 9 49 # N 每 100 kbp 4 8 12 18 11 12 8 12 GC (%) 65.26 56.88 57.93 54.55 52.70 59.54 53.27 50.12 平均 覆盖深度 341 209 167 173 122 205 154 132 预测基因数 7498 7470 8757 7428 9348 7908 9190 9482 美东时间。基因密度 333 287 268 240 259 289 261 300 完成 BUSCO (%) 96.60 96.90 97.20 94.90 98.10 97.20 97.80 96.60 完成 BUSCO (n) 3688 3696 3710 3621 3743 3710 3734 3686 完整——单人 3685 3690 3705 3613 3739 3703 3729 3679 完整——重复 3 6 5 8 4 7 5 7 支离破碎的 16 16 28 30 10 23 12 40 丢失的 113 105 79 166 64 84 71 91 -
修正表:
表 3本研究测序的代表性鬼口类分离株的基因组汇总统计
物种 角囊藻 石墨烯 Leptographium s. 升 眼袋 s. 升 Ceratocystiopsis sp. 香菇 G. ipis-grandicollis sp. 十一月 G. 参见 直角孢子菌 格罗。亨蒂 格罗。放射线虫 O.angusticollis 分类单元 分类单元 1 分类单元 2 分类单元 3 分类单元 4 分类单元 5 分类单元 6 分类单元 7 测序菌株 VPRI43766 VPRI43528 VPRI43762 VPRI43763 VPRI43530 VPRI43523 VPRI43764 基因库加入 JADHKF010000000 JADHKG010000000 JADHKH010000000 JADHKI010000000 JADHKJ010000000 JADHKK010000000 JADHKL010000000 QC 后的总读数 27,063,242 50,135,289 49,429,518 46,778,484 94,294,776 114,599,394 10,454,088 脚手架数量 79 237 178 117 254 85 317 最长重叠群 (Mb) 1,540,000 999,956 1,555,217 1,343,814 1,099,032 2,583,828 651,020 美东时间。基因组大小 (Mb) 20.45 34.04 24.02 23.61 28.05 27.56 23.80 N50 (bp) 471,680 323,198 601,306 298,270 343,842 883,760 236,362 L50 12 32 13 22 25 11 34 # N 每 100 kbp 10 7 14 6 8 5 14 GC (%) 61.48 55.75 55.53 60.91 54.63 57.09 57.89 平均 覆盖深度 197 218 305 296 493 619 61 预测基因数 6967 9034 7221 7270 7836 7867 8022 美东时间。基因密度 341 265 301 308 279 286 337 完成 BUSCO (%) 95.20 97.10 95.60 95.70 97.40 96.40 96.60 完成 BUSCO (n) 3636 3706 3647 3651 3716 3680 3686 完整——单人 3631 3699 3644 3648 3710 3673 3680 完整——重复 5 7 3 3 6 7 6 支离破碎的 17 23 29 18 17 21 18 丢失的 164 88 141 148 84 116 113 物种 眼袋 s. 升 拉斐尔 孢子丝菌 石墨 O. fasciatum O.ips 苍白球藻 R. deltoideospora 桉树 S. 参见 黑麦 假枞树 石墨属 分类单元 分类单元 8 分类单元 9 分类单元 10 分类单元 11 分类单元 12 分类单元 13 分类单元 14 分类单元 15 测序菌株 VPRI43845 VPRI43529 VPRI43846 VPRI43720 VPRI43754 VPRI43755 VPRI43531 VPRI43844 基因库加入 JADHKM010000000 JADHKN010000000 JADHKO010000000 JADHKP010000000 JADHKQ010000000 JADHKR010000000 JADHKS010000000 JADHKT010000000 QC 后的总读数 51,287,508 37,261,588 36,666,452 35,927,882 29,627,312 37,781,794 36,719,768 28,160,580 脚手架数量 36 208 473 120 92 125 51 490 最长重叠群 (Mb) 2,360,849 1,117,630 543,815 1,965,135 1,881,930 1,307,617 3,412,636 1,008,604 美东时间。基因组大小 (Mb) 22.54 26.01 32.66 30.95 36.13 27.34 35.20 31.65 N50 (bp) 966,108 283,044 126,120 416,364 790,753 398,989 1,285,428 190,968 L50 9 29 84 25 16 23 9 49 # N 每 100 kbp 4 8 12 18 11 12 8 12 GC (%) 65.26 56.88 57.93 54.55 52.70 59.54 53.27 50.12 平均 覆盖深度 341 209 167 173 122 205 154 132 预测基因数 7498 7470 8757 7428 9348 7908 9190 9482 美东时间。基因密度 333 287 268 240 259 289 261 300 完成 BUSCO (%) 96.60 96.90 97.20 94.90 98.10 97.20 97.80 96.60 完成 BUSCO (n) 3688 3696 3710 3621 3743 3710 3734 3686 完整——单人 3685 3690 3705 3613 3739 3703 3729 3679 完整——重复 3 6 5 8 4 7 5 7 支离破碎的 16 16 28 30 10 23 12 40 丢失的 113 105 79 166 64 84 71 91
原文章已更正。
Trollip C 等人 (2021) 与澳大利亚东南部的松树皮甲虫和受侵染的松树相关的 Ophiostomatoid 真菌,包括Graphilbum ipis -grandicolis sp。十一月 IMA 真菌 12:24。https://doi.org/10.1186/s43008-021-00076-w
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拉筹伯大学应用系统生物学学院,Bundoora,VIC,3083,澳大利亚
康拉德·特罗利普、布伦丹·罗多尼和杰奎琳·爱德华兹
就业、辖区和地区部,维多利亚州农业研究部,AgriBio 中心,Bundoora,VIC,3083,澳大利亚
Conrad Trollip、Quang Dinh、Jatinder Kaur、Ross Mann、Brendan Rodoni 和 Jacqueline Edwards
森林科学,新南威尔士州初级产业部 - 林业,新南威尔士州帕拉马塔,2150,澳大利亚
安格斯·J·卡内基
就业、辖区和地区、生物安全和农业服务部,维多利亚州农业部,维多利亚州克兰伯恩,3977,澳大利亚
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Trollip, C., Carnegie, AJ, Dinh, Q.等。更正:与澳大利亚东南部的松树皮甲虫和受侵染的松树有关的蛇口真菌,包括Graphilbum ipis-grandicollis sp。十一月 IMA 真菌 12, 27 (2021)。https://doi.org/10.1186/s43008-021-00080-0
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