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27 results on '"Oulo, Millicent Akinyi"'

5. Resolving the evolutionary history of Ctenium and Kampochloa using phylogenomics, and a new circumscription of Cteniinae (Cynodonteae, Poaceae).

Author

Oulo, Millicent Akinyi, Wanga, Vincent Okelo, Mbandi, Elijah Mkala, Vorontsova, Maria S., Hu, Guang‐Wan, and Wang, Qing‐Feng

Subjects
TIME perception, BIOGEOGRAPHY, MIOCENE Epoch, GRASSES, GRASSLANDS
Abstract

Ctenium has about 20 species distributed in Africa, Arabia, and the Neotropics, with no species occurring on more than one continent. Its relationship with the morphologically similar Kampochloa is still unclear and has not been investigated. In this study, we performed phylogenomic analyses using 71 protein‐coding genes of 24 newly sequenced plastomes, of 13 species of Ctenium and 1 species of Kampochloa to understand their biogeography and the phylogenetic and evolutionary relationships between these two genera and within Ctenium. Our results support two major clades of Ctenium: the Neotropics and Old‐World clades. Kampochloa is shown to be a close relative of the genus Ctenium, and their morphological similarities support this. Divergence time estimation analyses show that Kampochloa and Ctenium diverged around 7.99 Ma, and might have originated in the late Miocene during the rapid expansion of C4 grasslands. With this evidence from morphology and phylogenomic data, we propose the inclusion of the previously unplaced Kampochloa into the subtribe Cteniinae. [ABSTRACT FROM AUTHOR]

Published
2024
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6. Resolving the evolutionary history of Cteniumand Kampochloausing phylogenomics, and a new circumscription of Cteniinae (Cynodonteae, Poaceae)

Author

Oulo, Millicent Akinyi, Wanga, Vincent Okelo, Mbandi, Elijah Mkala, Vorontsova, Maria S., Hu, Guang‐Wan, and Wang, Qing‐Feng

Abstract

Cteniumhas about 20 species distributed in Africa, Arabia, and the Neotropics, with no species occurring on more than one continent. Its relationship with the morphologically similar Kampochloais still unclear and has not been investigated. In this study, we performed phylogenomic analyses using 71 protein‐coding genes of 24 newly sequenced plastomes, of 13 species of Cteniumand 1 species of Kampochloato understand their biogeography and the phylogenetic and evolutionary relationships between these two genera and within Ctenium. Our results support two major clades of Ctenium: the Neotropics and Old‐World clades. Kampochloais shown to be a close relative of the genus Ctenium, and their morphological similarities support this. Divergence time estimation analyses show that Kampochloaand Cteniumdiverged around 7.99 Ma, and might have originated in the late Miocene during the rapid expansion of C4grasslands. With this evidence from morphology and phylogenomic data, we propose the inclusion of the previously unplaced Kampochloainto the subtribe Cteniinae.

Published
2024
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8. Projected impacts of climate change on the habitat of Xerophyta species in Africa

Author

Wanga, Vincent Okelo, primary, Ngarega, Boniface K., additional, Oulo, Millicent Akinyi, additional, Mkala, Elijah Mbandi, additional, Ngumbau, Veronicah Mutele, additional, Onjalalaina, Guy Eric, additional, Odago, Wyclif Ochieng, additional, Nanjala, Consolata, additional, Ochieng, Clintone Onyango, additional, Gichua, Moses Kirega, additional, Gituru, Robert Wahiti, additional, and Hu, Guang-Wan, additional

Published
2023
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10. Plastome structure of 8 Calanthe s.l. species (Orchidaceae):comparative genomics, phylogenetic analysis

Author

Nanjala, Consolata, Wanga, Vincent Okelo, Odago, Wyclif, Mutinda, Elizabeth Syowai, Waswa, Emmanuel Nyongesa, Oulo, Millicent Akinyi, Mkala, Elijah Mbandi, Kuja, Josiah, Yang, Jia-Xin, Dong, Xiang, Hu, Guang-Wan, Wang, Qing-Feng, Nanjala, Consolata, Wanga, Vincent Okelo, Odago, Wyclif, Mutinda, Elizabeth Syowai, Waswa, Emmanuel Nyongesa, Oulo, Millicent Akinyi, Mkala, Elijah Mbandi, Kuja, Josiah, Yang, Jia-Xin, Dong, Xiang, Hu, Guang-Wan, and Wang, Qing-Feng

Abstract

Background Calanthe (Epidendroideae, Orchidaceae) is a pantropical genus distributed in Asia and Africa. Its species are of great importance in terms of economic, ornamental and medicinal values. However, due to limited and confusing delimitation characters, the taxonomy of the Calanthe alliance (Calanthe, Cephalantheropsis, and Phaius) has not been sufficiently resolved. Additionally, the limited genomic information has shown incongruences in its systematics and phylogeny. In this study, we used illumina platform sequencing, performed a de novo assembly, and did a comparative analysis of 8 Calanthe group species' plastomes: 6 Calanthe and 2 Phaius species. Phylogenetic analyses were used to reconstruct the relationships of the species as well as with other species of the family Orchidaceae. Results The complete plastomes of the Calanthe group species have a quadripartite structure with varied sizes ranging between 150,105bp-158,714bp, including a large single-copy region (LSC; 83,364bp- 87,450bp), a small single-copy region (SSC; 16,297bp -18,586bp), and a pair of inverted repeat regions (IRs; 25,222bp - 26,430bp). The overall GC content of these plastomes ranged between 36.6-36.9%. These plastomes encoded 131-134 differential genes, which included 85-88 protein-coding genes, 37-38 tRNA genes, and 8 rRNA genes. Comparative analysis showed no significant variations in terms of their sequences, gene content, gene order, sequence repeats and the GC content hence highly conserved. However, some genes were lost in C. delavayi (P. delavayi), including ndhC, ndhF, and ndhK genes. Compared to the coding regions, the non-coding regions had more sequence repeats hence important for species DNA barcoding. Phylogenetic analysis revealed a paraphyletic relationship in the Calanthe group, and confirmed the position of Phaius delavayi in the genus Calanthe as opposed to its previous placement in Phaius. Conclusion This study provides a report on the complete plastomes of 6 Cal

Published
2022

12. Additional file 2 of Taxonomy, comparative genomics of Mullein (Verbascum, Scrophulariaceae), with implications for the evolution of Verbascum and Lamiales

Author

Dong, Xiang, Mkala, Elijah Mbandi, Mutinda, Elizabeth Syowai, Yang, Jia-Xin, Wanga, Vincent Okelo, Oulo, Millicent Akinyi, Onjolo, Victor Omondi, Hu, Guang-Wan, and Wang, Qing-Feng

Abstract

Additional file 2: Fig. S2. Substitution rate analysis of three Verbascum species, coding DNA sequence (CDS), tRNAs with intergenic spacer, and ribosomal RNA (rRNA).

Published
2022
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13. Additional file 3 of Taxonomy, comparative genomics of Mullein (Verbascum, Scrophulariaceae), with implications for the evolution of Verbascum and Lamiales

Author

Dong, Xiang, Mkala, Elijah Mbandi, Mutinda, Elizabeth Syowai, Yang, Jia-Xin, Wanga, Vincent Okelo, Oulo, Millicent Akinyi, Onjolo, Victor Omondi, Hu, Guang-Wan, and Wang, Qing-Feng

Abstract

Additional file 3: Fig. S3. Phylogenetic chronogram showing the evolution dating time, 95% highest posterior density (HPD) of the 86 taxa in the order Lamiales.

Published
2022
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14. Additional file 1 of Taxonomy, comparative genomics of Mullein (Verbascum, Scrophulariaceae), with implications for the evolution of Verbascum and Lamiales

Author

Dong, Xiang, Mkala, Elijah Mbandi, Mutinda, Elizabeth Syowai, Yang, Jia-Xin, Wanga, Vincent Okelo, Oulo, Millicent Akinyi, Onjolo, Victor Omondi, Hu, Guang-Wan, and Wang, Qing-Feng

Abstract

Additional file 1: Fig. S1. mVISTA percentage identity comparison among five plastomes from Verbascum using V. sinaiticum as reference. X-axis indicates the sequence coordinates in the whole cp genome. Y-axis represents the similarity of the aligned regions, indicating percent identity to the reference genome (50-100%).

Published
2022
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15. Additional file 4 of Taxonomy, comparative genomics of Mullein (Verbascum, Scrophulariaceae), with implications for the evolution of Verbascum and Lamiales

Author

Dong, Xiang, Mkala, Elijah Mbandi, Mutinda, Elizabeth Syowai, Yang, Jia-Xin, Wanga, Vincent Okelo, Oulo, Millicent Akinyi, Onjolo, Victor Omondi, Hu, Guang-Wan, and Wang, Qing-Feng

Abstract

Additional file 4: Table S1. The lengths of introns and exons for the splitting genes. Table S2. Verbascum blattaria long repeat position table. Table S3. Verbascum brevipedicellatum long repeat position table. Table S4. Verbascum chaixii long repeat position table. Table S5. Verbascum phoeniceum long repeat position table. Table S6. Verbascum sinaiticum long repeat position table. Table S7. Verbascum songaricum long repeat position table. Table S8. Verbascum thapsus long repeat position table. Table S9. SRRs present in Verbascum species. Table S10. Total number of SSRs repeats.

Published
2022
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20. Analysis of the Complete Plastomes of 31 Species of Hoya Group: Insights Into Their Comparative Genomics and Phylogenetic Relationships

Author

Odago, Wyclif Ochieng, primary, Waswa, Emmanuel Nyongesa, additional, Nanjala, Consolata, additional, Mutinda, Elizabeth Syowai, additional, Wanga, Vincent Okelo, additional, Mkala, Elijah Mbandi, additional, Oulo, Millicent Akinyi, additional, Wang, Yan, additional, Zhang, Cai-Fei, additional, Hu, Guang-Wan, additional, and Wang, Qing-Feng, additional

Published
2022
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21. Complete Chloroplast Genomes of Acanthochlamys bracteata (China) and Xerophyta (Africa) (Velloziaceae): Comparative Genomics and Phylogenomic Placement

Author

Wanga, Vincent Okelo, primary, Dong, Xiang, additional, Oulo, Millicent Akinyi, additional, Mkala, Elijah Mbandi, additional, Yang, Jia-Xin, additional, Onjalalaina, Guy Eric, additional, Gichua, Moses Kirega, additional, Kirika, Paul Muigai, additional, Gituru, Robert Wahiti, additional, Hu, Guang-Wan, additional, and Wang, Qing-Feng, additional

Published
2021
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23. Complete Chloroplast Genome of Rhipsalis baccifera, the only Cactus with Natural Distribution in the Old World: Genome Rearrangement, Intron Gain and Loss, and Implications for Phylogenetic Studies

Author

Oulo, Millicent Akinyi, primary, Yang, Jia-Xin, additional, Dong, Xiang, additional, Wanga, Vincent Okelo, additional, Mkala, Elijah Mbandi, additional, Munyao, Jacinta Ndunge, additional, Onjolo, Victor Omondi, additional, Rono, Peninah Cheptoo, additional, Hu, Guang-Wan, additional, and Wang, Qing-Feng, additional

Published
2020
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24. Figure 1 from: Ngumbau VM, Luke Q, Nyange M, Wanga VO, Watuma BM, Mbuni YM, Munyao JN, Oulo MA, Mkala EM, Kipkoech S, Itambo M, Hu G-W, Wang Q-F (2020) An annotated checklist of the coastal forests of Kenya, East Africa. PhytoKeys 147: 1-191. https://doi.org/10.3897/phytokeys.147.49602

Author

Ngumbau, Veronicah Mutele, primary, Luke, Quentin, additional, Nyange, Mwadime, additional, Wanga, Vincent Okelo, additional, Watuma, Benjamin Muema, additional, Mbuni, Yuvenalis Morara, additional, Munyao, Jacinta Ndunge, additional, Oulo, Millicent Akinyi, additional, Mkala, Elijah Mbandi, additional, Kipkoech, Solomon, additional, Itambo, Malombe, additional, Hu, Guang-Wan, additional, and Wang, Qing-Feng, additional

Published
2020
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25. An annotated checklist of the coastal forests of Kenya, East Africa

Author

Ngumbau, Veronicah Mutele, primary, Luke, Quentin, additional, Nyange, Mwadime, additional, Wanga, Vincent Okelo, additional, Watuma, Benjamin Muema, additional, Mbuni, Yuvenalis Morara, additional, Munyao, Jacinta Ndunge, additional, Oulo, Millicent Akinyi, additional, Mkala, Elijah Mbandi, additional, Kipkoech, Solomon, additional, Itambo, Malombe, additional, Hu, Guang-Wan, additional, and Wang, Qing-Feng, additional

Published
2020
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27. The complete chloroplast genome sequence of Xerophyta spekei (Velloziaceae).

Author

Wanga, Vincent Okelo, Dong, Xiang, Oulo, Millicent Akinyi, Munyao, Jacinta Ndunge, Mkala, Elijah Mbandi, Kirika, Paul, Gituru, Robert Wahiti, and Hu, Guang-Wan

Subjects
NUCLEOTIDE sequencing, CHLOROPLAST DNA, CHLOROPLASTS, RNA editing, TRANSFER RNA, RIBOSOMAL RNA
Abstract

The complete chloroplast genome sequence of Xerophyta spekei Baker was reported in this study. The complete chloroplast genome showed a stereotypical quadripartite structure as observed in other angiosperms with a length of 155,235 bp and divided into four parts; a pair of IRs (27,109 bp) which is separated by a small single copy (SSC) region (17,388 bp) and a large single copy (LSC) region (83,629bp). The chloroplast genome had 132 genes, including 85 protein-coding genes, 38 tRNA genes, and 8 rRNA genes. Seven protein-coding genes were identified to have RNA editing. [ABSTRACT FROM AUTHOR]

Published
2020
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