89,579 results match your criteria coding region


Hypospadias in ring X syndrome.

Eur J Med Genet 2021 Apr 16:104225. Epub 2021 Apr 16.

Division of Genetic and Metabolic Medicine, Department of Pediatrics, Prince Sultan Military Medical City, Riyadh, Saudi Arabia; College of Medicine, Alfaisal University , Riyadh , Saudi Arabia.

Ring X is a chromosomal anomaly mainly seen in females with turner syndrome and usually present in mosaic form with 45,X cells (45,X/46,X,r(X)) because of their mitotic instability. In males it is an extremely rare finding because large nullisomy for X chromosome material is likely not compatible with survival. Only two cases of male with ring chromosome X were previously reported. Read More

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A genome-wide screen for differentially methylated long noncoding RNAs identified that lncAC007255.8 is regulated by promoter DNA methylation in Beas-2B cells malignantly transformed by NNK.

Toxicol Lett 2021 Apr 16. Epub 2021 Apr 16.

State Key Laboratory of Respiratory Disease, The First Affiliated Hospital of Guangzhou medical university, No. 151 Yanjiang Road, Yuexiu District, Guangzhou 510120, China; The Institute for Chemical Carcinogenesis, Guangzhou Medical University, Xinzao, Panyu District, Guangzhou 511436, China. Electronic address:

Tobacco exposure is well known to induce genetic and epigenetic changes that contribute to the pathogenesis of lung cancer. 4-(Methylnitrosamino)-1-(3-pyridyl)-1-butanone (NNK) is a significant tobacco-specific carcinogen, but the oncogenic mechanisms of NNK have not been thoroughly elucidated. In this study we found that DNA methyltransferase 1(DNMT1) was overexpressed in malignantly transformed human bronchial epithelial Beas-2B cells induced by NNK (2B-NNK cells), by treatment with NNK (400 μg/ml) for 7 days. Read More

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NLK suppresses MAVS-mediated signaling in black carp antiviral innate immunity.

Dev Comp Immunol 2021 Apr 16:104105. Epub 2021 Apr 16.

State Key Laboratory of Developmental Biology of Freshwater Fish, College of Life Science, Hunan Normal University, Changsha, 410081, China. Electronic address:

Mammalian Nemo-like kinase (NLK) plays important roles in multiple biological processes including immune response; however, the roles of teleost NLK remain largely unknown. In the present study, the NLK homologue (bcNLK) of black carp (Mylopharyngodon piceus) has been cloned and characterized. The coding region of bcNLK consists of 1427 nucleotides and encodes 476 amino acid, including two low complexity region (LCR) domains at the N-terminus and a serine/threonine protein kinase catalytic (S-TKc) domain in the middle region. Read More

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Whole genome deep sequencing analysis of viral quasispecies diversity and evolution in HBeAg seroconverters.

JHEP Rep 2021 Jun 18;3(3):100254. Epub 2021 Feb 18.

Graduate Institute of Clinical Medicine, College of Medicine, National Taiwan University, Taipei, Taiwan.

Background & Aims: We aimed to investigate how viral quasispecies of the HBV whole genome evolves and diversifies in response to HBeAg seroconversion and viral control utilising next-generation sequencing (NGS).

Methods: Fifty HBeAg-positive chronic hepatitis B patients, including 18 treatment-naïve and 32 interferon (IFN)-treated individuals, were recruited. Serial HBV whole genomes in serum were analysed by NGS to determine sequence characteristics and viral quasispecies. Read More

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A 127 kb truncating deletion of PGRMC1 is a novel cause of X-linked isolated paediatric cataract.

Eur J Hum Genet 2021 Apr 19. Epub 2021 Apr 19.

Menzies Institute for Medical Research, University of Tasmania, Hobart, TAS, Australia.

Inherited paediatric cataract is a rare Mendelian disease that results in visual impairment or blindness due to a clouding of the eye's crystalline lens. Here we report an Australian family with isolated paediatric cataract, which we had previously mapped to Xq24. Linkage at Xq24-25 (LOD = 2. Read More

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The complete genome of extracellular protease-producing Deinococcus sp. D7000 isolated from the hadal region of Mariana Trench Challenger Deep.

Mar Genomics 2021 Jun 30;57:100832. Epub 2020 Nov 30.

Ministry of Education Key Laboratory for Biodiversity Science and Ecological Engineering, Institute of Biodiversity Science, School of Life Sciences, Fudan University, Shanghai, China; Shanghai Engineering Research Center of Industrial Microorganisms, Shanghai, China. Electronic address:

The general features and genomic characteristics of gram-positive Deinococcus sp. D7000 isolated from the hadal region of Mariana Trench Challenger Deep were analyzed in this study. Deinococcus sp. Read More

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GmST1, which encodes a sulfotransferase, confers resistance to soybean mosaic virus strains G2 and G3.

Plant Cell Environ 2021 Apr 18. Epub 2021 Apr 18.

Key Laboratory of Soybean Biology in Chinese Education Ministry (Key Laboratory of Soybean Biology and Breeding/Genetics of Chinese Agriculture Ministry), Northeast Agricultural University, Harbin, China.

Soybean mosaic virus (SMV) is one of the most widespread and devastating viral diseases worldwide. The genetic architecture of qualitative resistance to SMV in soybean remains unclear. Here, the Rsvg2 locus was identified as underlying soybean resistance to SMV by genome-wide association and linkage analyses. Read More

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Molecular characterization of a novel totivirus infecting the basal fungus Conidiobolus heterosporus.

Arch Virol 2021 Apr 17. Epub 2021 Apr 17.

Anhui Provincial Key Laboratory of Microbial Pest Control, Anhui Agricultural University, Hefei, 230036, China.

Mycoviruses are widely distributed in fungi, but only a few mycoviruses have been reported in basal fungi to date. Here, we characterized a novel totivirus isolated from the basal fungus Conidiobolus heterosporus, and we designated this virus as "Conidiobolus heterosporus totivirus 1" (ChTV1). The complete genome of ChTV1 contains two discontinuous open reading frames (ORFs), ORF1 and ORF2, encoding a putative coat protein (CP) and a putative RNA-dependent RNA polymerase (RdRP), respectively. Read More

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Identification and molecular characterization of tea-oil camellia-associated totivirus 1.

Arch Virol 2021 Apr 17. Epub 2021 Apr 17.

Key Laboratory of Poyang Lake Environment and Resource, School of Life Science, Ministry of Education, Nanchang University, Nanchang, 330031, Jiangxi, China.

A novel dsRNA virus was identified by high-throughput sequencing from tea oil trees in China. Its complete genome of 4714 bp contains two open reading frames (ORFs). ORF1 encodes a putative coat protein (CP) of 702 amino acids (aa), and ORF2 codes for an RNA-dependent RNA polymerase (RdRp) of 855 aa. Read More

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Chlamydia overcomes multiple gastrointestinal barriers to achieve long-lasting colonization.

Authors:
Guangming Zhong

Trends Microbiol 2021 Apr 14. Epub 2021 Apr 14.

Department of Microbiology, Immunology, and Molecular Genetics, University of Texas Health Science Center at San Antonio, 7703 Floyd Curl Drive, San Antonio, TX 78229, USA. Electronic address:

Chlamydia trachomatis (CT) is frequently detected in the human gastrointestinal (GI) tract despite its leading role in sexually transmitted bacterial infections in the genital tract. Chlamydia muridarum (CM), a model pathogen for investigating CT pathogenesis in the genital tract, can also colonize the mouse GI tract for long periods. Genital-tract mutants of CM no longer colonize the GI tract. Read More

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Lnc-HZ08 regulates BPDE-induced trophoblast cell dysfunctions by promoting PI3K ubiquitin degradation and is associated with miscarriage.

Cell Biol Toxicol 2021 Apr 16. Epub 2021 Apr 16.

Research Center for Environment and Female Reproductive Health, The Eighth Affiliated Hospital, Sun Yat-sen University, Shenzhen, 518033, China.

Increasing evidences have shown that pregnant women might miscarry after exposure with environmental BaP (benzo(a)pyrene). Additionally, BPDE (benzo(a)pyren-7,8-dihydrodiol-9,10-epoxide), the ultimate metabolite of BaP, could induce dysfunctions of human trophoblast cells. However, it is rarely correlated between miscarriage and trophoblast dysfunctions. Read More

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Cross-oncopanel study reveals high sensitivity and accuracy with overall analytical performance depending on genomic regions.

Authors:
Binsheng Gong Dan Li Rebecca Kusko Natalia Novoradovskaya Yifan Zhang Shangzi Wang Carlos Pabón-Peña Zhihong Zhang Kevin Lai Wanshi Cai Jennifer S LoCoco Eric Lader Todd A Richmond Vinay K Mittal Liang-Chun Liu Donald J Johann James C Willey Pierre R Bushel Ying Yu Chang Xu Guangchun Chen Daniel Burgess Simon Cawley Kristina Giorda Nathan Haseley Fujun Qiu Katherine Wilkins Hanane Arib Claire Attwooll Kevin Babson Longlong Bao Wenjun Bao Anne Bergstrom Lucas Hunter Best Ambica Bhandari Halil Bisgin James Blackburn Thomas M Blomquist Lisa Boardman Blake Burgher Daniel J Butler Chia-Jung Chang Alka Chaubey Tao Chen Marco Chierici Christopher R Chin Devin Close Jeffrey Conroy Jessica Cooley Coleman Daniel J Craig Erin Crawford Angela Del Pozo Ira W Deveson Daniel Duncan Agda Karina Eterovic Xiaohui Fan Jonathan Foox Cesare Furlanello Abhisek Ghosal Sean Glenn Meijian Guan Christine Haag Xinyi Hang Scott Happe Brittany Hennigan Jennifer Hipp Huixiao Hong Kyle Horvath Jianhong Hu Li-Yuan Hung Mirna Jarosz Jennifer Kerkhof Benjamin Kipp David Philip Kreil Paweł Łabaj Pablo Lapunzina Peng Li Quan-Zhen Li Weihua Li Zhiguang Li Yu Liang Shaoqing Liu Zhichao Liu Charles Ma Narasimha Marella Rubén Martín-Arenas Dalila B Megherbi Qingchang Meng Piotr A Mieczkowski Tom Morrison Donna Muzny Baitang Ning Barbara L Parsons Cloud P Paweletz Mehdi Pirooznia Wubin Qu Amelia Raymond Paul Rindler Rebecca Ringler Bekim Sadikovic Andreas Scherer Egbert Schulze Robert Sebra Rita Shaknovich Qiang Shi Tieliu Shi Juan Carlos Silla-Castro Melissa Smith Mario Solís López Ping Song Daniel Stetson Maya Strahl Alan Stuart Julianna Supplee Philippe Szankasi Haowen Tan Lin-Ya Tang Yonghui Tao Shraddha Thakkar Danielle Thierry-Mieg Jean Thierry-Mieg Venkat J Thodima David Thomas Boris Tichý Nikola Tom Elena Vallespin Garcia Suman Verma Kimbley Walker Charles Wang Junwen Wang Yexun Wang Zhining Wen Valtteri Wirta Leihong Wu Chunlin Xiao Wenzhong Xiao Shibei Xu Mary Yang Jianming Ying Shun H Yip Guangliang Zhang Sa Zhang Meiru Zhao Yuanting Zheng Xiaoyan Zhou Christopher E Mason Timothy Mercer Weida Tong Leming Shi Wendell Jones Joshua Xu

Genome Biol 2021 Apr 16;22(1):109. Epub 2021 Apr 16.

Division of Bioinformatics and Biostatistics, National Center for Toxicological Research, US Food and Drug Administration, Jefferson, AR, 72079, USA.

Background: Targeted sequencing using oncopanels requires comprehensive assessments of accuracy and detection sensitivity to ensure analytical validity. By employing reference materials characterized by the U.S. Read More

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Genome-wide identification and comparative analysis of the WRKY gene family in aquatic plants and their response to abiotic stresses in giant duckweed (Spirodela polyrhiza).

Genomics 2021 Apr 13. Epub 2021 Apr 13.

The State Key Laboratory of Freshwater Ecology and Biotechnology, The Key Laboratory of Aquatic Biodiversity and Conservation of Chinese Academy of Sciences, Institute of Hydrobiology, Chinese Academy of Sciences, Wuhan 430072, Hubei, China; University of Chinese Academy of Sciences, Beijing 100049, China. Electronic address:

WRKY is one of the largest transcription factor families across higher plant species and is involved in important biological processes and plant responses to various biotic/abiotic stresses. However, only a few investigations on WRKYs have been conducted in aquatic plants. This study first systematically analyzed the gene structure, protein properties, and phylogenetic relationship of 693 WRKYs in nine aquatic and two wetland plants at the genome-wide level. Read More

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Motif lengths of circular codes in coding sequences.

J Theor Biol 2021 Apr 13:110708. Epub 2021 Apr 13.

Competence Center for mathematical and algorithmical methods in Biology, Biotechnology and Medicine, Mannheim University of Applied Sciences, 68163 Mannheim, Germany. Electronic address:

Protein synthesis is a crucial process in any cell. Translation, in which mRNA is translated into proteins, can lead to several errors, notably frame shifts where the ribosome accidentally skips or re-reads one or more nucleotides. So-called circular codes are capable of discovering frame shifts and their codons can be found disproportionately often in coding sequences. Read More

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Non-coding Regions of Mitochondrial DNA and the cox1 Gene Reveal Genetic Variability Among Local Belarusian Populations of the Causative Agent of Cercarial Dermatitis, Bird Schistosome Trichobilharzia szidati (Digenea: Schistosomatidae).

Acta Parasitol 2021 Apr 15. Epub 2021 Apr 15.

Laboratory of Genome Organization, Institute of Gene Biology of the Russian Academy of Sciences, Moscow, Russia.

Introduction: The cercariae of avian blood flukes Trichobilharzia szidati (Digenea, Schistosomatidae) are known to cause cercarial allergic dermatitis ("swimmer's itch") in humans. Global epidemics can have significant impacts on local tourism-related economies in recreational areas. Little is known about the genetic polymorphism of the parasite population, or about the variability of the non-coding regions of mitochondrial DNA (mtDNA) and the possibility of using this as a genetic marker. Read More

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The role of the isolation of the marginal seas during the Pleistocene in the genetic structure of black sea bream (Bleeker, 1854) in the coastal waters of Japan.

PeerJ 2021 2;9:e11001. Epub 2021 Apr 2.

Graduate School of Biosphere Science, Hiroshima University, Higashi Hiroshima, Hiroshima, Japan.

The black sea bream (Bleeker, 1854) is a commercially important species in Japanese waters. Assessing its population structure is essential to ensure its sustainability. In the Northwestern Pacific, historical glacial and interglacial periods during the Pleistocene have shaped the population structure of many coastal marine fishes. Read More

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Evolutionary Changes in the Interaction of miRNA With mRNA of Candidate Genes for Parkinson's Disease.

Front Genet 2021 30;12:647288. Epub 2021 Mar 30.

Faculty of Biology and Biotechnology, Al-Farabi Kazakh National University, Almaty, Kazakhstan.

Parkinson's disease (PD) exhibits the second-highest rate of mortality among neurodegenerative diseases. PD is difficult to diagnose and treat due to its polygenic nature. In recent years, numerous studies have established a correlation between this disease and miRNA expression; however, it remains necessary to determine the quantitative characteristics of the interactions between miRNAs and their target genes. Read More

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Complete Genome Sequences of 10 Lactococcal Phages Isolated from Cheddar Cheese Whey Samples in Canada.

Microbiol Resour Announc 2021 Apr 15;10(15). Epub 2021 Apr 15.

Département de Biochimie, de Microbiologie et de Bio-informatique, Faculté des Sciences et de Génie, Université Laval, Québec, QC, Canada

We report the complete genome sequences of 10 virulent phages of the genus () that infect strains used for cheddar cheese production in Canada. Their linear genomes range from 28,969 bp to 31,042 bp with GC contents of 34.1 to 35. Read More

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Methylation of SERPINA1 gene promoter may predict chronic obstructive pulmonary disease in patients affected by acute coronary syndrome.

Clin Epigenetics 2021 Apr 15;13(1):79. Epub 2021 Apr 15.

Department of Medical Sciences, University of Ferrara, Ferrara, Italy.

Background: Diagnostic biomarkers for detecting chronic obstructive pulmonary disease (COPD) in acute coronary syndrome (ACS) patients are not available. SERPINA1, coding for the most potent circulating anti-inflammatory protein in the lung, has been found to be differentially methylated in blood cells from COPD patients. This study aimed to investigate the methylation profile of SERPINA1 in blood cells from ACS patients, with (COPD+) or without COPD (COPD-). Read More

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Circular RNA hsa_circ_0003288 induces EMT and invasion by regulating hsa_circ_0003288/miR-145/PD-L1 axis in hepatocellular carcinoma.

Cancer Cell Int 2021 Apr 15;21(1):212. Epub 2021 Apr 15.

Department of Interventional Radiology, First Affiliated Hospital of Soochow University, 188 Shizi Street, Suzhou, Jiangsu, 215006, China.

Background: Epithelial-mesenchymal transition (EMT) has been associated with wound healing, tumorigenesis, and metastasis. Circular RNAs (circRNAs) are functional non-coding RNAs involved in multiple human cancers. However, whether and how circRNAs contribute to the EMT in hepatocellular carcinomas (HCC) remains to be deciphered. Read More

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Zn-dependent enhancement of Atrazine biodegradation by Klebsiella variicola FH-1.

J Hazard Mater 2021 Jun 14;411:125112. Epub 2021 Jan 14.

School of Science and Technology, Georgia Gwinnett College, Lawrenceville, GA 30043, USA. Electronic address:

Degradation efficiency of Atrazine by Klebsiella variicola FH-1 is improved by the addition of Zn. Both the chromosome and plasmid genomes of strain FH-1 were sequenced and annotated to identify genes involved in the degradation of Atrazine. Four open reading frames (ORFs) 1040, 2582, 3597, and 4043 encoding Zn-dependent hydrolases were knocked out to verify their predicted functions in the degradation of Atrazine. Read More

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Snord116 Post-transcriptionally Increases Nhlh2 mRNA Stability: Implications for Human Prader-Willi Syndrome.

Hum Mol Genet 2021 Apr 15. Epub 2021 Apr 15.

Translational Biology, Medicine and Health Graduate Program, 1 Riverside Circle, Virginia Tech, Roanoke, VA 24016.

The smallest genomic region causing Prader-Willi Syndrome (PWS) deletes the non-coding RNA SNORD116 cluster; however, the function of SNORD116 remains a mystery. Previous work in the field revealed the tantalizing possibility that expression of NHLH2, a gene previously implicated in both obesity and hypogonadism, was downregulated in PWS patients and differentiated stem cells. In silico RNA: RNA modeling identified several potential interaction domains between SNORD116 and NHLH2 mRNA. Read More

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The complete chloroplast genome of (Ranunculaceae).

Mitochondrial DNA B Resour 2021 Mar 31;6(4):1319-1320. Epub 2021 Mar 31.

Tasly Pharmaceutical Group Co., Ltd, Tianjin, China.

The complete chloroplast genome of was determined in this study. The genome was 159,675 base pair (bp) in length, containing a large single-copy (LSC) region of 79,443 bp, a small single-copy region (SSC) of 18,100 bp and a pair of inverted repeats (IRs) of 31,066 bp. It contains 130 unique genes, including 86 protein-coding genes, 36 transfer RNA (tRNA) genes, and eight ribosomal RNA (rRNA) genes. Read More

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Mitochondrial genome of (Trichoptera).

Mitochondrial DNA B Resour 2021 Mar 31;6(4):1315-1316. Epub 2021 Mar 31.

Ocean College, Guangxi Key Laboratory of Beibu Gulf Marine Biodiversity Conservation, Beibu Gulf University, Qinzhou, PR China.

Trichoptera are a group of the benthic organism, almost all of which live in water during their life cycle. Trichoptera usually develop through egg, larva, pupa, and moth stages. In its larval stage, Trichoptera usually live in water and are often called the caddisfly. Read More

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The complete mitochondrial genome of yellowfin seabream, (Percoiformes, Sparidae) from Beibu Bay.

Mitochondrial DNA B Resour 2021 Mar 31;6(4):1313-1314. Epub 2021 Mar 31.

Guangxi Key Laboratory of Aquatic Genetic Breeding and Healthy Aquaculture, Guangxi Academy of Fishery Sciences, Nanning, China.

The yellowfin seabream, Houttuyn 1782, is a commercially and ecologically important species and a good model for studies of sexual differentiation. In this study, the complete mitochondrial genome of has been determined, which is 16,635 base pairs (54.3% A + T content) in length and consists of 13 protein-coding genes, 22 transfer RNAs, two ribosomal RNAs, and a 948 bp D-loop region. Read More

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The complete mitochondrial genome of (Orthoptera: Acridoidea: Gomphoceridae).

Mitochondrial DNA B Resour 2021 Apr 1;6(4):1310-1312. Epub 2021 Apr 1.

Institute of Life Science and Technology, Inner Mongolia Normal University, Hohhot, China.

The complete mitogenome was sequenced through Illumina HiSeq 2500 platform and the resulting data were analyzed in this paper. The mitochondrial genome of is a typical circular DNA molecule of 15,781 bp with 37 genes and 74.5% A + T content, which encoded 13 protein-coding genes (PCGs), 22 tRNA genes, two rRNA genes, and the control region. Read More

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The complete mitochondrial genome of (Chaetodontiformes, chaetodontidae).

Mitochondrial DNA B Resour 2021 Mar 31;6(4):1290-1291. Epub 2021 Mar 31.

Guangdong Provincial Key Laboratory of Fishery Ecology and Environment, South China Sea Fisheries Research Institute, Chinese Academy of Fishery Sciences, Guangzhou, China.

Chaetodontidae species feeding observations showed that they mostly fed on different coral species. Among them, (Cuvier, 1831) is one of most important genera of Chaetodontidae, and appeared to ingest annelid worms during the course of coral feeding, whereas gut contents of and were dominated by crustaceans. However, the systemically classification and taxonomic studies have so far been limited. Read More

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The complete chloroplast genome of (Poaceae: ) and phylogenetic analysis.

Mitochondrial DNA B Resour 2021 Apr 1;6(4):1285-1286. Epub 2021 Apr 1.

Bamboo Research Institute, Guizhou University, Guiyang, China.

is a kind of bamboo that has excellent edible and economic value, which is endemic to southwest China. The study used next-generation sequencing to obtain the complete chloroplast (cp) genome sequence of . The cp genome of has a total length of 138,908 bp, and consisted of an 82,495-bp large single-copy region, an 12,743-bp small single-copy region, and two 21,835-bp IR regions. Read More

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A The complete chloroplast genome and phylogenetic analysis of Bupleurum yinchowense Shan & Yin Li.

Mitochondrial DNA B Resour 2021 Mar 30;6(3):1233-1235. Epub 2021 Mar 30.

Institute of Medicinal Plant Development, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing, China.

Shan & Yin Li was first described as a new species in 1974, but its classification status has always been disputed. Here, its complete chloroplast genome was provided to resolve this issue. The length of the chloroplast genome is 155,851 bp and composed of two inverted repeats (IR: 26,307 bp), a large single-copy region (LSC: 85,625 bp), and a small single-copy region (SSC: 17,612 bp). Read More

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Complete chloroplast genome of (Lem.) A.C.Sm. (Schisandraceae): genome structure and evolution.

Mitochondrial DNA B Resour 2021 Mar 30;6(3):1222-1223. Epub 2021 Mar 30.

Guangxi Institute of Botany, Guangxi Zhuang Autonomous Region and Chinese Academy of Sciences, Guilin, China.

(Lem.) A.C. Read More

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