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Your search keyword '"Jin, Jian-Jun"' showing total 12 results
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12 results on '"Jin, Jian-Jun"'

1. Additional file 14 of Plastid phylogenomic insights into relationships of all flowering plant families

Author

Li, Hong-Tao, Luo, Yang, Gan, Lu, Ma, Peng-Fei, Gao, Lian-Ming, Yang, Jun-Bo, Cai, Jie, Gitzendanner, Matthew A., Fritsch, Peter W., Zhang, Ting, Jin, Jian-Jun, Zeng, Chun-Xia, Wang, Hong, Yu, Wen-Bin, Zhang, Rong, van der Bank, Michelle, Olmstead, Richard G., Hollingsworth, Peter M., Chase, Mark W., Soltis, Douglas E., Soltis, Pamela S., Yi, Ting-Shuang, and Li, De-Zhu

Abstract

Additional file 14: Additional Text. Overview of angiosperm phylogeny at the familial level.

Published
2021
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2. Additional file 10 of Plastid phylogenomic insights into relationships of all flowering plant families

Author

Li, Hong-Tao, Luo, Yang, Gan, Lu, Ma, Peng-Fei, Gao, Lian-Ming, Yang, Jun-Bo, Cai, Jie, Gitzendanner, Matthew A., Fritsch, Peter W., Zhang, Ting, Jin, Jian-Jun, Zeng, Chun-Xia, Wang, Hong, Yu, Wen-Bin, Zhang, Rong, van der Bank, Michelle, Olmstead, Richard G., Hollingsworth, Peter M., Chase, Mark W., Soltis, Douglas E., Soltis, Pamela S., Yi, Ting-Shuang, and Li, De-Zhu

Abstract

Additional file 10: Figure S9. Topologies of a pruned Maximum Likelihood phylogeny of 431 representative species (���ML431_pruned���) and ASTRAL analysis (���astral431_BS10���) of a 43-species subdataset of angiosperms using 80 plastid genes. The ML bootstrap percentages and ASTRAL local posterior probabilities are shown, respectively.

Published
2021
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3. Additional file 7 of Plastid phylogenomic insights into relationships of all flowering plant families

Author

Li, Hong-Tao, Luo, Yang, Gan, Lu, Ma, Peng-Fei, Gao, Lian-Ming, Yang, Jun-Bo, Cai, Jie, Gitzendanner, Matthew A., Fritsch, Peter W., Zhang, Ting, Jin, Jian-Jun, Zeng, Chun-Xia, Wang, Hong, Yu, Wen-Bin, Zhang, Rong, van der Bank, Michelle, Olmstead, Richard G., Hollingsworth, Peter M., Chase, Mark W., Soltis, Douglas E., Soltis, Pamela S., Yi, Ting-Shuang, and Li, De-Zhu

Abstract

Additional file 7: Figure S6. Phylogenetic tree of 4792 plastomes of 445 families (including 12 gymnosperm families) of seed plants.

Published
2021
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4. Additional file 9 of Plastid phylogenomic insights into relationships of all flowering plant families

Author

Li, Hong-Tao, Luo, Yang, Gan, Lu, Ma, Peng-Fei, Gao, Lian-Ming, Yang, Jun-Bo, Cai, Jie, Gitzendanner, Matthew A., Fritsch, Peter W., Zhang, Ting, Jin, Jian-Jun, Zeng, Chun-Xia, Wang, Hong, Yu, Wen-Bin, Zhang, Rong, van der Bank, Michelle, Olmstead, Richard G., Hollingsworth, Peter M., Chase, Mark W., Soltis, Douglas E., Soltis, Pamela S., Yi, Ting-Shuang, and Li, De-Zhu

Abstract

Additional file 9: Figure S8. Phylogenetic tree of 4792 plastomes with successive removal of the long branch forming a sister relationship with a ���clade��� of Mitrastemonaceae, Thismiaceae, Apodanthaceae, and Balanophoraceae.

Published
2021
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5. Additional file 11 of Plastid phylogenomic insights into relationships of all flowering plant families

Author

Li, Hong-Tao, Luo, Yang, Gan, Lu, Ma, Peng-Fei, Gao, Lian-Ming, Yang, Jun-Bo, Cai, Jie, Gitzendanner, Matthew A., Fritsch, Peter W., Zhang, Ting, Jin, Jian-Jun, Zeng, Chun-Xia, Wang, Hong, Yu, Wen-Bin, Zhang, Rong, van der Bank, Michelle, Olmstead, Richard G., Hollingsworth, Peter M., Chase, Mark W., Soltis, Douglas E., Soltis, Pamela S., Yi, Ting-Shuang, and Li, De-Zhu

Abstract

Additional file 11: Figure S10. Family relationships within the pruned angiosperm phylogeny: nodes by Quartet Concordance (QC) scores for internal branches: green (QC > 0.2), blue (0.2 ��� QC > 0), orange (0 ��� QC ��� ���0.05, or red (QC < ���0.05). QC/Quartet Differential (QD)/Quartet Informativeness (QI) scores are shown for all internal branches.

Published
2021
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6. Additional file 13 of Plastid phylogenomic insights into relationships of all flowering plant families

Author

Li, Hong-Tao, Luo, Yang, Gan, Lu, Ma, Peng-Fei, Gao, Lian-Ming, Yang, Jun-Bo, Cai, Jie, Gitzendanner, Matthew A., Fritsch, Peter W., Zhang, Ting, Jin, Jian-Jun, Zeng, Chun-Xia, Wang, Hong, Yu, Wen-Bin, Zhang, Rong, van der Bank, Michelle, Olmstead, Richard G., Hollingsworth, Peter M., Chase, Mark W., Soltis, Douglas E., Soltis, Pamela S., Yi, Ting-Shuang, and Li, De-Zhu

Abstract

Additional file 13: Figure S12. Family relationships within the pruned angiosperm subdataset. In this tree, bootstrap/gCF/sCF scores are shown for each branch.

Published
2021
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7. Additional file 3 of Plastid phylogenomic insights into relationships of all flowering plant families

Author

Li, Hong-Tao, Luo, Yang, Gan, Lu, Ma, Peng-Fei, Gao, Lian-Ming, Yang, Jun-Bo, Cai, Jie, Gitzendanner, Matthew A., Fritsch, Peter W., Zhang, Ting, Jin, Jian-Jun, Zeng, Chun-Xia, Wang, Hong, Yu, Wen-Bin, Zhang, Rong, van der Bank, Michelle, Olmstead, Richard G., Hollingsworth, Peter M., Chase, Mark W., Soltis, Douglas E., Soltis, Pamela S., Yi, Ting-Shuang, and Li, De-Zhu

Abstract

Additional file 3: Figure S2. Phylogenetic tree of 4782 plastomes of 445 families (including 12 gymnosperm families) of seed plants. Five problematic families (Rafflesiaceae, Apodanthaceae, Balanophoraceae, Mitrastemonaceae, and Thismiaceae) were added manually (see Results for details).

Published
2021
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8. Additional file 8 of Plastid phylogenomic insights into relationships of all flowering plant families

Author

Li, Hong-Tao, Luo, Yang, Gan, Lu, Ma, Peng-Fei, Gao, Lian-Ming, Yang, Jun-Bo, Cai, Jie, Gitzendanner, Matthew A., Fritsch, Peter W., Zhang, Ting, Jin, Jian-Jun, Zeng, Chun-Xia, Wang, Hong, Yu, Wen-Bin, Zhang, Rong, van der Bank, Michelle, Olmstead, Richard G., Hollingsworth, Peter M., Chase, Mark W., Soltis, Douglas E., Soltis, Pamela S., Yi, Ting-Shuang, and Li, De-Zhu

Abstract

Additional file 8: Figure S7. Phylogenetic tree of 4792 plastomes of 4660 species of seed plants. All bootstrap values are shown.

Published
2021
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9. Additional file 6 of Plastid phylogenomic insights into relationships of all flowering plant families

Author

Li, Hong-Tao, Luo, Yang, Gan, Lu, Ma, Peng-Fei, Gao, Lian-Ming, Yang, Jun-Bo, Cai, Jie, Gitzendanner, Matthew A., Fritsch, Peter W., Zhang, Ting, Jin, Jian-Jun, Zeng, Chun-Xia, Wang, Hong, Yu, Wen-Bin, Zhang, Rong, van der Bank, Michelle, Olmstead, Richard G., Hollingsworth, Peter M., Chase, Mark W., Soltis, Douglas E., Soltis, Pamela S., Yi, Ting-Shuang, and Li, De-Zhu

Abstract

Additional file 6: Figure S5. Phylogenetic tree of 4792 plastomes of 76 orders (including eight gymnosperm orders) of seed plants.

Published
2021
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10. Additional file 5 of Plastid phylogenomic insights into relationships of all flowering plant families

Author

Li, Hong-Tao, Luo, Yang, Gan, Lu, Ma, Peng-Fei, Gao, Lian-Ming, Yang, Jun-Bo, Cai, Jie, Gitzendanner, Matthew A., Fritsch, Peter W., Zhang, Ting, Jin, Jian-Jun, Zeng, Chun-Xia, Wang, Hong, Yu, Wen-Bin, Zhang, Rong, van der Bank, Michelle, Olmstead, Richard G., Hollingsworth, Peter M., Chase, Mark W., Soltis, Douglas E., Soltis, Pamela S., Yi, Ting-Shuang, and Li, De-Zhu

Abstract

Additional file 5: Figure S4. Phylogenetic tree of 4782 plastomes (with ten plastomes of five problematic families excluded) of 4650 species of seed plants. Bootstrap values are shown.

Published
2021
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11. Additional file 1 of GetOrganelle: a fast and versatile toolkit for accurate de novo assembly of organelle genomes

Author

Jin, Jian-Jun, Yu, Wen-Bin, Yang, Jun-Bo, Song, Yu, DePamphilis, Claude W., Yi, Ting-Shuang, and Li, De-Zhu

Abstract

Additional file 1: Figure S1. Reads mapping comparisons among the plastomes reassembled using GetOrganelle and NOVOPlasty, and the plastome from GenBank (KY085912) based on the same raw data SRR5602602 (Laurus nobilis L.). Figure S2. The covering positions and corresponding coverages at the plastome of newly captured reads during each round using GetOrganelle, with different arguments. A whole plastome and an rbcL region (right) from a gymnosperm species Gnetum parvifolium (Warb.) W.C.Cheng (GenBank nucleotide accession number: NC_011942.1) as the seed to assemble the plastome of an angiosperm species Haberlea rhodopensis from an online WGS dataset (GenBank SRA accession number: SRR4428742).

Published
2020
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