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Jin WY, Liu B, Zhang SZ, Wan T, Hou C, Yang Y. Gnetum chinense, a new species of Gnetaceae from southwestern China. PHYTOKEYS 2020; 148:105-117. [PMID: 32523394 PMCID: PMC7266837 DOI: 10.3897/phytokeys.148.48510] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 11/15/2019] [Accepted: 03/31/2020] [Indexed: 06/11/2023]
Abstract
Gnetum chinense sp. nov., a new lianoid species of Gnetaceae, is described from southwestern China. The new species is morphologically similar to G. montanum Markgr. in its oblong elliptic leaves and the ovoid to ellipsoid chlamydosperm, but differs from the latter by its shorter male spikes having fewer involucral collars (7-10 vs. 13-18 in G. montanum). We also did a new molecular analysis using one nuclear marker (i.e. nrITS) and four chloroplast markers (i.e. matK gene, rpoC1 intron, psbB-rps12 IGS, and trnF-trnV IGS). The result suggests that this specific clade is sister to a large clade consisting of all other known Chinese lianoid species of Gnetum except G. parvifolium (Warb.) W.C. Cheng.
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Affiliation(s)
- Wei-Yin Jin
- State Key Laboratory of Systematic and Evolutionary Botany, Institute of Botany, Chinese Academy of Sciences, 20 Nanxincun, Xiangshan, Beijing 100093, ChinaInstitute of Botany, Chinese Academy of SciencesBeijingChina
- Tonghua Normal University, 950 Yucai Road, Dongchang District, Tonghua City, Jilin Province 134000, ChinaGuangdong Academy of ForestryGuangzhouChina
| | - Bing Liu
- State Key Laboratory of Systematic and Evolutionary Botany, Institute of Botany, Chinese Academy of Sciences, 20 Nanxincun, Xiangshan, Beijing 100093, ChinaInstitute of Botany, Chinese Academy of SciencesBeijingChina
| | - Shou-Zhou Zhang
- Shenzhen Fairy Lake Botanical Garden, Shenzhen, ChinaTonghua Normal UniversityTonghuaChina
| | - Tao Wan
- Shenzhen Fairy Lake Botanical Garden, Shenzhen, ChinaTonghua Normal UniversityTonghuaChina
| | - Chen Hou
- Guangdong Provincial Key Laboratory of Silviculture, Protection and Utilization, Guangdong Academy of Forestry, Guangzhou, 510520, China
- Guangdong Academy of Forestry, Guangzhou, 510520, ChinaShenzhen Fairy Lake Botanical GardenShenzhenChina
| | - Yong Yang
- State Key Laboratory of Systematic and Evolutionary Botany, Institute of Botany, Chinese Academy of Sciences, 20 Nanxincun, Xiangshan, Beijing 100093, ChinaInstitute of Botany, Chinese Academy of SciencesBeijingChina
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Mao J, Zhou F, Liu T, Wu Z, Zhong T, Liu C, Wei Q, Chen J, Huang S. The complete chloroplast genome of Gnetum montanum and sequence analysis. Mitochondrial DNA A DNA Mapp Seq Anal 2016; 28:409-410. [PMID: 26731418 DOI: 10.3109/19401736.2015.1127368] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]
Abstract
The complete chloroplast sequence of Gnetum montanum (GenBank accession number: NC_021438.1) was determined and characterized in this study. The size of the chloroplast genome of Gnetum montanum is 115 019 bp. Including a large single copy (LSC) region of 66 697 bp and a small single copy (SSC) region of 9494 bp separated by a pair of identical inverted repeat regions (IRs) of 19 414 bp each. A total of 108 genes that were successfully annotated contains 65 protein-coding genes, 40 tRNA genes and 3 rRNA genes. The GC content of the chloroplast genome of Gnetum montanum is 38.16%. Twelve genes contain one introns.
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Affiliation(s)
- Jipeng Mao
- a Guangdong Key Laboratory for Innovative Development and Utilization of Forest Plant Germplasm & College of Forestry and Landscape Architecture , South China Agricultural University , Guangzhou , China
| | - Feng Zhou
- b College of Life Sciences , Guangzhou , China
| | - Tianyi Liu
- a Guangdong Key Laboratory for Innovative Development and Utilization of Forest Plant Germplasm & College of Forestry and Landscape Architecture , South China Agricultural University , Guangzhou , China
| | - Zhengyu Wu
- a Guangdong Key Laboratory for Innovative Development and Utilization of Forest Plant Germplasm & College of Forestry and Landscape Architecture , South China Agricultural University , Guangzhou , China
| | - Ting Zhong
- a Guangdong Key Laboratory for Innovative Development and Utilization of Forest Plant Germplasm & College of Forestry and Landscape Architecture , South China Agricultural University , Guangzhou , China
| | - Chunxin Liu
- a Guangdong Key Laboratory for Innovative Development and Utilization of Forest Plant Germplasm & College of Forestry and Landscape Architecture , South China Agricultural University , Guangzhou , China
| | - Qiang Wei
- c South China Botanical Garden, Chinese Academy of Science , Guangzhou , China
| | - Jiehu Chen
- d Science Corporation of Gene , GuangZhou , China
| | - Shaowei Huang
- a Guangdong Key Laboratory for Innovative Development and Utilization of Forest Plant Germplasm & College of Forestry and Landscape Architecture , South China Agricultural University , Guangzhou , China
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Zhao P, Woeste KE. DNA markers identify hybrids between butternut (Juglans cinerea L.) and Japanese walnut (Juglans ailantifolia Carr.). TREE GENETICS & GENOMES 2011; 7:511-533. [PMID: 0 DOI: 10.1007/s11295-010-0352-4] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/23/2023]
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Jagarlamudi S, G R, Kurapati RK, Pinnamaneni R. Molecular identification of Mango, Mangifera indica L.var. totupura. Bioinformation 2011; 5:405-9. [PMID: 21423885 PMCID: PMC3055156 DOI: 10.6026/97320630005405] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/20/2010] [Accepted: 01/10/2011] [Indexed: 11/23/2022] Open
Abstract
Mango (>Mangifera indica) belonging to Anacardiaceae family is a fruit that grows in tropical regions. It is considered as the King of fruits. The present
work was taken up to identify a tool in identifying the mango species at the molecular level. The chloroplast trnL-F region was amplified from extracted
total genomic DNA using the polymerase chain reaction (PCR) and sequenced. Sequence of the dominant DGGE band revealed that Mangifera indica in
tested leaves was Mangifera indica (100% similarity to the ITS sequences of Mangifera indica). This sequence was deposited in NCBI with the accession
no. GQ927757.
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Affiliation(s)
| | - Rosaiah G
- Department of Botany, Acharya Nagarjuna University, Nagarjuna Nagar, Andhra Pradesh, India
| | | | - Rajasekhar Pinnamaneni
- Department of Biotechnology, Sreenidhi Institute of Science and Technology, Yamnampet, Ghatkesar, R.R.District, Andhra Pradesh,India
- Rajasekhar Pinnamaneni:
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Zhou Y, Lu C, Wu QJ, Wang Y, Sun ZT, Deng JC, Zhang Y. GISSD: Group I Intron Sequence and Structure Database. Nucleic Acids Res 2007; 36:D31-7. [PMID: 17942415 PMCID: PMC2238919 DOI: 10.1093/nar/gkm766] [Citation(s) in RCA: 64] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/17/2022] Open
Abstract
Group I Intron Sequence and Structure Database (GISSD) is a specialized and comprehensive database for group I introns, focusing on the integration of useful group I intron information from available databases and providing de novo data that is essential for understanding these introns at a systematic level. This database presents 1789 complete intron records, including the nucleotide sequence of each annotated intron plus 15 nt of the upstream and downstream exons, and the pseudoknots-containing secondary structures predicted by integrating comparative sequence analyses and minimal free energy algorithms. These introns represent all 14 subgroups, with their structure-based alignments being separately provided. Both structure predictions and alignments were done manually and iteratively adjusted, which yielded a reliable consensus structure for each subgroup. These consensus structures allowed us to judge the confidence of 20 085 group I introns previously found by the INFERNAL program and to classify them into subgroups automatically. The database provides intron-associated taxonomy information from GenBank, allowing one to view the detailed distribution of all group I introns. CDSs residing in introns and 3D structure information are also integrated if available. About 17 000 group I introns have been validated in this database; ∼95% of them belong to the IC3 subgroup and reside in the chloroplast tRNALeu gene. The GISSD database can be accessed at http://www.rna.whu.edu.cn/gissd/
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Affiliation(s)
- Yu Zhou
- State Key Laboratory of Virology, College of Life Sciences, Wuhan University, Wuhan, Hubei 430072, People's Republic of China
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