Database : MEDLINE
Search on : chenopodiaceae [Words]
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[PMID]: 28743765
[Au] Autor:Kurmanbayeva A; Bekturova A; Srivastava S; Soltabayeva A; Asatryan A; Ventura Y; Khan MS; Salazar O; Fedoroff N; Sagi M
[Ad] Address:Plant Stress Laboratory, French Associates Institute for Agriculture and Biotechnology of Drylands, Blaustein Institutes for Desert Research, Ben-Gurion University of the Negev, 84990, Israel.
[Ti] Title:Higher Novel L-Cys Degradation Activity Results in Lower Organic-S and Biomass in than the Related Saltwort, .
[So] Source:Plant Physiol;175(1):272-289, 2017 Sep.
[Is] ISSN:1532-2548
[Cp] Country of publication:United States
[La] Language:eng
[Ab] Abstract:and are almost identical halophytes whose edible succulent shoots hold promise for commercial production in saline water. Enhanced sulfur nutrition may be beneficial to crops naturally grown on high sulfate. However, little is known about sulfate nutrition in halophytes. Here we show that (ecotype RN) exhibits a significant increase in biomass and organic-S accumulation in response to supplemental sulfate, whereas (ecotype VM) does not, instead exhibiting increased sulfate accumulation. We investigated the role of two pathways on organic-S and biomass accumulation in and : the sulfate reductive pathway that generates Cys and l-Cys desulfhydrase that degrades Cys to H S, NH , and pyruvate. The major function of -acetyl-Ser-(thiol) lyase (OAS-TL; EC 2.5.1.47) is the formation of l-Cys, but our study shows that the OAS-TL A and OAS-TL B of both halophytes are enzymes that also degrade l-Cys to H S. This activity was significantly higher in than in , especially upon sulfate supplementation. The activity of the sulfate reductive pathway key enzyme, adenosine 5'-phosphosulfate reductase (APR, EC 1.8.99.2), was significantly higher in than in These results suggest that the low organic-S level in is the result of high l-Cys degradation rate by OAS-TLs, whereas the greater organic-S and biomass accumulation in is the result of higher APR activity and low l-Cys degradation rate, resulting in higher net Cys biosynthesis. These results present an initial road map for halophyte growers to attain better growth rates and nutritional value of and .
[Mh] MeSH terms primary: Amaranthaceae/metabolism
Chenopodiaceae/metabolism
Cysteine/metabolism
Plant Proteins/metabolism
Salsola/metabolism
Sulfur/metabolism
[Mh] MeSH terms secundary: Amaranthaceae/drug effects
Biomass
Chenopodiaceae/drug effects
Cysteine Synthase/metabolism
Oxidoreductases Acting on Sulfur Group Donors/metabolism
Salinity
Salsola/drug effects
Salt-Tolerant Plants
Sodium/pharmacology
Sulfates/pharmacology
Sulfhydryl Compounds/metabolism
[Pt] Publication type:COMPARATIVE STUDY; JOURNAL ARTICLE
[Nm] Name of substance:0 (Plant Proteins); 0 (Sulfates); 0 (Sulfhydryl Compounds); 70FD1KFU70 (Sulfur); 9NEZ333N27 (Sodium); EC 1.8.- (Oxidoreductases Acting on Sulfur Group Donors); EC 1.8.99.2 (adenylylsulfate reductase); EC 2.5.1.47 (Cysteine Synthase); K848JZ4886 (Cysteine)
[Em] Entry month:1802
[Cu] Class update date: 180226
[Lr] Last revision date:180226
[Js] Journal subset:IM
[Da] Date of entry for processing:170727
[St] Status:MEDLINE
[do] DOI:10.1104/pp.17.00780

  2 / 935 MEDLINE  
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[PMID]: 29175605
[Au] Autor:Yadav S; Mishra A; Jha B
[Ad] Address:Marine Biotechnology and Ecology Division, CSIR-Central Salt and Marine Chemicals Research Institute, G. B. Marg, Bhavnagar, (Gujarat), India. Electronic address: sonamyadav@csmcri.org.
[Ti] Title:Elevated CO leads to carbon sequestration by modulating C photosynthesis pathway enzyme (PPDK) in Suaeda monoica and S. fruticosa.
[So] Source:J Photochem Photobiol B;178:310-315, 2018 Jan.
[Is] ISSN:1873-2682
[Cp] Country of publication:Switzerland
[La] Language:eng
[Ab] Abstract:The C halophytic species Suaeda monoica and S. fruticosa, possess the C photosynthesis pathway without Kranz anatomy were grown at ambient (470ppm CO ) and elevated (850ppm CO ) atmospheric CO under control containment facility to study the plant response under CO stress condition. The relative growth of both Suaeda species was enhanced with atmospheric CO enrichment compared to control (ambient) condition. The photosynthesis rate was found 2.5µmolCO m s in both species under stress condition compared to about 1.9µmolCO m s under control conditions. About 0.3molH Om s conductance was detected under an unstressed condition which decreased significantly to ~0.07molH Om s on the 6th day of stress treatment. Similarly, transpiration rate was also decreased significantly from 4.4-5.2mmolH Om s to 1.7-1.9 under stress condition. In contrast, VpdL increased significantly from 1.9kPa to 2.5kPa under stress condition. A higher total chlorophyll content observed in S. monoica (56.36mgg tissue) compared to S. fruticosa (33.12mgg tissue) under unstressed (control) condition. A significant increase was found in the total chlorophyll content of S. fruticosa (45.47mgg tissue) with stress treatment compared to control (33.12mgg tissue). In contrast, the total chlorophyll decreased in S. monoica (51.58mgg tissue) under similar stress condition compared to control plants (56.36mgg tissue). About 6-6.8mg total sugar per gram tissue found under control condition which enhanced further (7.5 to 11mgg tissue) under stress condition. Similarly, total reducing sugar (~2mgg tissue) and total starch content (6.5-11mgg tissue) increased under stress condition. About 6.5- and 3- fold higher expression of PPDK gene was observed for S. monoica and S. fruticosa, respectively under CO stress condition. PPDK (1.2- and 1.5- fold) and antioxidant enzymes; APX (12.7- and two-fold), CAT (2.2- and 6.4- fold) and SOD (4.6- and 94- fold) enhanced significantly in S. fruticosa and S. monoica, respectively under high CO stress condition compared to control plants. Overall, it was observed that PPDK enzyme plays a key role in C photosynthesis pathway and S. monoica is a potential candidate to be explored further for the saline agricultural and CO capture.
[Mh] MeSH terms primary: Carbon Dioxide/metabolism
Chenopodiaceae/metabolism
Plant Proteins/metabolism
Pyruvate, Orthophosphate Dikinase/metabolism
[Mh] MeSH terms secundary: Ascorbate Peroxidases/genetics
Ascorbate Peroxidases/metabolism
Carbon Sequestration
Catalase/genetics
Catalase/metabolism
Chenopodiaceae/growth & development
Chlorophyll/metabolism
Photosynthesis
Plant Leaves/metabolism
Plant Proteins/genetics
Pyruvate, Orthophosphate Dikinase/genetics
Starch/metabolism
Sugars/metabolism
Superoxide Dismutase/genetics
Superoxide Dismutase/metabolism
[Pt] Publication type:JOURNAL ARTICLE
[Nm] Name of substance:0 (Plant Proteins); 0 (Sugars); 1406-65-1 (Chlorophyll); 142M471B3J (Carbon Dioxide); 9005-25-8 (Starch); EC 1.11.1.11 (Ascorbate Peroxidases); EC 1.11.1.6 (Catalase); EC 1.15.1.1 (Superoxide Dismutase); EC 2.7.9.1 (Pyruvate, Orthophosphate Dikinase)
[Em] Entry month:1802
[Cu] Class update date: 180212
[Lr] Last revision date:180212
[Js] Journal subset:IM
[Da] Date of entry for processing:171128
[St] Status:MEDLINE

  3 / 935 MEDLINE  
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[PMID]: 29292193
[Au] Autor:Yao L; Wang J; Li B; Meng Y; Ma X; Si E; Ren P; Yang K; Shang X; Wang H
[Ad] Address:Gansu Provincial Key Lab of Aridland Crop Science/Gansu Key Lab of Crop Improvement and Germplasm Enhancement, Lanzhou, China; College of Agronomy, Gansu Agricultural University, Lanzhou, China.
[Ti] Title:Transcriptome sequencing and comparative analysis of differentially-expressed isoforms in the roots of Halogeton glomeratus under salt stress.
[So] Source:Gene;646:159-168, 2018 Mar 10.
[Is] ISSN:1879-0038
[Cp] Country of publication:Netherlands
[La] Language:eng
[Ab] Abstract:Although Halogeton glomeratus (H. glomeratus) has been confirmed to have a unique mechanism to regulate Na efflux from the cytoplasm and compartmentalize Na into leaf vacuoles, little is known about the salt tolerance mechanisms of roots under salinity stress. In the present study, transcripts were sequenced using the BGISEQ-500 sequencing platform (BGI, Wuhan, China). After quality control, approximately 24.08 million clean reads were obtained and the average mapping ratio to the reference gene was 70.00%. When comparing salt-treated samples with the control, a total of 550, 590, 1411 and 2063 DEIs were identified at 2, 6, 24 and 72h, respectively. Numerous differentially-expressed isoforms that play important roles in response and adaptation to salt condition are related to metabolic processes, cellular processes, single-organism processes, localization, biological regulation, responses to stimulus, binding, catalytic activity and transporter activity. Fifty-eight salt-induced isoforms were common to different stages of salt stress; most of these DEIs were related to signal transduction and transporters, which maybe the core isoforms regulating Na uptake and transport in the roots of H. glomeratus. The expression patterns of 18 DEIs that were detected by quantitative real-time polymerase chain reaction were consistent with their respective changes in transcript abundance as identified by RNA-Seq technology. The present study thoroughly explored potential isoforms involved in salt tolerance on H. glomeratus roots at five time points. Our results may serve as an important resource for the H. glomeratus research community, improving our understanding of salt tolerance in halophyte survival under high salinity stress.
[Mh] MeSH terms primary: Chenopodiaceae/growth & development
Gene Expression Profiling/methods
High-Throughput Nucleotide Sequencing/methods
Plant Proteins/genetics
Sequence Analysis, RNA/methods
[Mh] MeSH terms secundary: Alternative Splicing
Chenopodiaceae/drug effects
Chenopodiaceae/genetics
Chromosome Mapping
Gene Expression Regulation, Plant/drug effects
Plant Roots/drug effects
Plant Roots/genetics
Plant Roots/growth & development
Protein Isoforms/genetics
Salt-Tolerance
Sodium Chloride/pharmacology
Stress, Physiological
[Pt] Publication type:COMPARATIVE STUDY; JOURNAL ARTICLE
[Nm] Name of substance:0 (Plant Proteins); 0 (Protein Isoforms); 451W47IQ8X (Sodium Chloride)
[Em] Entry month:1802
[Cu] Class update date: 180202
[Lr] Last revision date:180202
[Js] Journal subset:IM
[Da] Date of entry for processing:180103
[St] Status:MEDLINE

  4 / 935 MEDLINE  
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[PMID]: 29269783
[Au] Autor:Li X; Hao Q; Wei M; Andreev AA; Wang J; Tian Y; Li X; Cai M; Hu J; Shi W
[Ad] Address:College of Resource, Environment and Tourism, The Capital Normal University, Beijing, 100048, China.
[Ti] Title:Phased uplift of the northeastern Tibetan Plateau inferred from a pollen record from Yinchuan Basin, northwestern China.
[So] Source:Sci Rep;7(1):18023, 2017 Dec 21.
[Is] ISSN:2045-2322
[Cp] Country of publication:England
[La] Language:eng
[Ab] Abstract:The uplift of the Tibetan Plateau (TP) significantly affected both regional and global climates. Although there is evidence that the Tibetan Plateau experienced uplift during the Quaternary, the timing and amplitude are poorly constrained. However, the increased availability of long sedimentary records of vegetation change provides an opportunity to reconstruct the timing of the uplift. Here, we present a well-dated, high-resolution pollen record for the last 2.6 Ma from the Yinchuan Basin, which was incised by the Yellow River with its source in the northeastern Tibetan Plateau. Variations in the Artemisia/Chenopodiaceae (A/C) ratio of the reveal changes in moisture conditions in the Yinchuan Basin during glacial-interglacial cycles, as well as a gradual long-term aridification trend which is consistent with progressive global cooling. However, fluctuations in the percentages of Picea and Abies differ from those of the A/C ratio and we propose that they reflect changes in the vegetation and environment of high elevation areas. The Picea and Abies records reveal two phases of increased representation, at 2.1 and 1.2 Ma, which may indicate phases in the uplift of the northeastern Tibetan Plateau. Thus, they provide independent evidence for the timing of the uplift of the Tibetan Plateau during the Quaternary.
[Pt] Publication type:JOURNAL ARTICLE
[Em] Entry month:1712
[Cu] Class update date: 180104
[Lr] Last revision date:180104
[St] Status:In-Data-Review
[do] DOI:10.1038/s41598-017-16915-z

  5 / 935 MEDLINE  
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[PMID]: 28466186
[Au] Autor:Tai F; Lv S; Jiang P; Wang J; Feng J; Li Y
[Ad] Address:Key Laboratory of Plant Molecular Physiology, Institute of Botany, Chinese Academy of Sciences, No. 20 Nanxincun, Xiangshan, Beijing, 100093, China.
[Ti] Title:Establishment of a gene function analysis system for the euhalophyte Salicornia europaea L.
[So] Source:Plant Cell Rep;36(8):1251-1261, 2017 Aug.
[Is] ISSN:1432-203X
[Cp] Country of publication:Germany
[La] Language:eng
[Ab] Abstract:KEY MESSAGE: A Salicornia europaea L. in vitro cell transformation system was developed and further applied to SeNHX1 function investigation. The exploration of salt-tolerant genes from halophyte has seriously been limited by the lack of self-dependent transformation system. Here, an Agrobacterium tumefaciens-mediated in vitro cell transformation system of euhalophyte Salicornia europaea L. was developed. Calli derived from hypocotyl of S. europaea were co-cultured for 3 days with Agrobacterium at OD ranging from 1.0 to 1.5 and then selected with 25 mg/L hygromycin (Hyg). The transformed cells were identified from Hyg positive calli by GUS assay and qRT-PCR, and the transformation efficiency was up to 74.4%. The practicality of this system was further tested via genetic manipulation of S. europaea Na /H antiporter 1 (SeNHX1) gene by creating the overexpressing, silencing, and empty vector cells. Survival ratio and Na distribution under salt treatment showed obvious differences in SeNHX1-overexpressing, -silencing, and empty vector cells, indicating the feasibility of this system to analyze gene function. This investigation is enlightening for studies in other non-model plants lacking of self-dependent transformation system.
[Mh] MeSH terms primary: Chenopodiaceae/metabolism
[Mh] MeSH terms secundary: Agrobacterium tumefaciens/genetics
Chenopodiaceae/drug effects
Chenopodiaceae/genetics
Hypocotyl/drug effects
Hypocotyl/genetics
Hypocotyl/metabolism
Plant Proteins/genetics
Plant Proteins/metabolism
Plants, Genetically Modified/drug effects
Plants, Genetically Modified/genetics
Plants, Genetically Modified/metabolism
Salt-Tolerance/genetics
Salt-Tolerant Plants/drug effects
Salt-Tolerant Plants/genetics
Salt-Tolerant Plants/metabolism
Sodium Chloride/pharmacology
Sodium-Hydrogen Exchangers/genetics
Sodium-Hydrogen Exchangers/metabolism
Transformation, Genetic/genetics
[Pt] Publication type:JOURNAL ARTICLE
[Nm] Name of substance:0 (Plant Proteins); 0 (Sodium-Hydrogen Exchangers); 451W47IQ8X (Sodium Chloride)
[Em] Entry month:1801
[Cu] Class update date: 180102
[Lr] Last revision date:180102
[Js] Journal subset:IM
[Da] Date of entry for processing:170504
[St] Status:MEDLINE
[do] DOI:10.1007/s00299-017-2150-z

  6 / 935 MEDLINE  
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[PMID]: 29261345
[Au] Autor:Wang QZ; Qiu P; Liu F; Wang B; Guan FQ; Feng X; Xu S
[Ad] Address:a Jiangsu Key Laboratory for the Research and Utilization of Plants Resources , The Jiangsu Provincial Platform for Conservation and Utilization of Agricultural Germplasm, Institute of Botany, Jiangsu Province and Chinese Academy of Sciences / Nanjing Botanical Garden Mem. Sun Yat-Sen , Nanjing 2100
[Ti] Title:Suaeglaucin A, a new coumaronochromone from Suaeda glauca.
[So] Source:J Asian Nat Prod Res;:1-7, 2017 Dec 20.
[Is] ISSN:1477-2213
[Cp] Country of publication:England
[La] Language:eng
[Ab] Abstract:A new isoflavane, suaeglaucin A (1), which was isolated from the herb of Suaeda glauca (Bunge) Bunge, was elucidated as 5,6,8-trimethoxy-7- hydroxycoumaronochromone based on its MS and 1D and 2D NMR spectroscopic data. The structure of compound 1 was confirmed by X-ray crystallographic analysis. Five known compounds (2-6) were also isolated. All compounds were isolated for the first time from Chenopodiaceae. We found that compounds 2 and 4 possessed moderate antioxidant activity.
[Pt] Publication type:JOURNAL ARTICLE
[Em] Entry month:1712
[Cu] Class update date: 171220
[Lr] Last revision date:171220
[St] Status:Publisher
[do] DOI:10.1080/10286020.2017.1415330

  7 / 935 MEDLINE  
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[PMID]: 29210002
[Au] Autor:Moran PJ; Wibawa MI; Smith L
[Ad] Address:U.S. Department of Agriculture-Agricultural Research Service, Exotic and Invasive Weeds Research Unit, 800 Buchanan St., Albany, CA, 94710, USA. Patrick.Moran@ars.usda.gov.
[Ti] Title:Tolerance of the eriophyid mite Aceria salsolae to UV-A light and implications for biological control of Russian thistle.
[So] Source:Exp Appl Acarol;73(3-4):327-338, 2017 Dec.
[Is] ISSN:1572-9702
[Cp] Country of publication:Netherlands
[La] Language:eng
[Ab] Abstract:Aceria salsolae (Acari: Eriophyidae) is being evaluated as a candidate biological control agent of Russian thistle (Salsola tragus, Chenopodiaceae), a major invasive weed of rangelands and dryland crops in the western USA. Prior laboratory host range testing under artificial lighting indicated reproduction on non-native Bassia hyssopifolia and on a native plant, Suaeda calceoliformis. However, in field tests in the native range, mite populations released on these 'nontarget' plants remained low. We hypothesized that UV-A light, which can affect behavior of tetranychid mites, would affect populations of the eriophyid A. salsolae differently on the target and nontarget plant species, decreasing the mite's realized host range. Plants were infested with A. salsolae under lamps that emitted UV-A, along with broad-spectrum lighting, and the size of mite populations and plant growth was compared to infested plants exposed only to broad-spectrum light. Russian thistle supported 3- to 55-fold larger mite populations than nontarget plants regardless of UV-A treatment. UV-A exposure did not affect mite populations on Russian thistle or S. calceoliformis, whereas it increased populations 7-fold on B. hyssopifolia. Main stems on nontarget plants grew 2- to 6-fold faster than did Russian thistle under either light treatment. The two nontarget plants attained greater volume under the control light regime than UV-A, but Russian thistle was unaffected. Although Russian thistle was always the superior host, addition of UV-A light to the artificial lighting regime did not reduce the ability of A. salsolae to reproduce on the two nontarget species, suggesting that UV-B or other environmental factors may be more important in limiting mite populations in the field.
[Pt] Publication type:JOURNAL ARTICLE
[Em] Entry month:1712
[Cu] Class update date: 171220
[Lr] Last revision date:171220
[St] Status:In-Process
[do] DOI:10.1007/s10493-017-0205-z

  8 / 935 MEDLINE  
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[PMID]: 29158707
[Au] Autor:Al-Said MS; Siddiqui NA; Mukhair MA; Parvez MK; Alam P; Ali M; Haque A
[Ad] Address:Department of Pharmacognosy, College of Pharmacy, King Saud University, Riyadh, Saudi Arabia.
[Ti] Title:A novel monocyclic triterpenoid and a norsesquaterpenol from the aerial parts of Forssk. ex J.F. Gmel with cell proliferative potential.
[So] Source:Saudi Pharm J;25(7):1005-1010, 2017 Nov.
[Is] ISSN:1319-0164
[Cp] Country of publication:Saudi Arabia
[La] Language:eng
[Ab] Abstract:Forssk. ex J.F. Gmel (Chenopodiaceae), a mangrove herb, is distributed in tropical Africa, Arabian Peninsula, India, Pakistan, Palestine and Jordan. The plant parts are used to treat sore throat, hepatitis, wounds, rheumatism, paralysis, asthma, snakebites, skin disease and ulcer. Two new phytoconstituents characterized as 13,17-octahydropentalene-4,4,10,23-tetramethyl-17,21-diisopropyl-tetradecahydrocyclo-[a]-phenanthrene-(14), 20(23), 21(30)-trien-5α-ol (SMC-3) and [1,4,4-trimethyl-cyclopent-1(5)-enyl]-9,10,17,21-tetramethyl-9α-ol-16α (17α)-epoxy heptadecan-6,10-dione (SMC-4) belong to the class norsesquaterpenol and monocyclic triterpenoid, respectively, along with two known compounds 3-epi-lupeol (SMC-1) and 4-cyclopentylpyrocatechol (SMC-2) have been isolated from the ethanol extract of aerial parts of using normal and reverse phase column as well as planar chromatography. The spectroscopic studies including 1D, 2D NMR (DEPT, COSY, HMBC and HSQC) aided by EIMS mass and IR spectra were used to establish their structures. All the four compounds were tested for cytotoxicity on cultured HepG2 cells and for cell proliferation activities. The results revealed no cytotoxicity even at highest (6.25-50 µg/ml) dose of all the four compounds. The compound SMC-1 showed prominent cell proliferative activity as compared to other SMC compounds.
[Pt] Publication type:JOURNAL ARTICLE
[Em] Entry month:1711
[Cu] Class update date: 171123
[Lr] Last revision date:171123
[St] Status:PubMed-not-MEDLINE
[do] DOI:10.1016/j.jsps.2017.03.008

  9 / 935 MEDLINE  
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[PMID]: 29143601
[Au] Autor:Genievskaya Y; Abugalieva S; Zhubanysheva A; Turuspekov Y
[Ad] Address:Institute of Plant Biology and Biotechnology, Almaty, Kazakhstan, 050040.
[Ti] Title:Morphological description and DNA barcoding study of sand rice (Agriophyllum squarrosum, Chenopodiaceae) collected in Kazakhstan.
[So] Source:BMC Plant Biol;17(Suppl 1):177, 2017 Nov 14.
[Is] ISSN:1471-2229
[Cp] Country of publication:England
[La] Language:eng
[Ab] Abstract:BACKGROUND: Sand rice (Agriophyllum squarrosum (L.) Moq.) is an annual shrub-like plant adapted to the mobile sand dunes in desert and semi-desert regions of Asia. It has a balanced nutrient composition with relatively high concentration of lipids and proteins, which results in its nutrition being similar to legumes. Sand rice's proteins contain the full range of essential amino acids. However, calories content is more similar to wheat. These features together with desert stress resistance make sand rice a potential food crop resilient to ongoing climate change. It is also an important fodder crop (on young stages of growth) for cattle in arid regions of Kazakhstan. In our work, sand rice samples were collected from two distant regions of Kazakhstan as a part of the nation-wide project to determine genetic variation of the native flora. RESULTS: Samples were collected in western and southeastern parts of Kazakhstan separated by distances of up to 1300 km. Sequences of the nuclear ribosomal DNA ITS1-5.8S-ITS2 region and the chloroplast matK gene confirmed the identity of species defined by morphological traits. Comparison with GenBank sequences revealed polymorphic sequence positions among Kazakh populations and GenBank references, and suggested a distinction among local populations of sand rice. The phylogenetic analysis of nucleotide sequences showed a clear partition of A. squarrosum (L.) Moq. from Agriophyllum minus Fisch. & C.A. Mey, which grows in the same sand dunes environment. CONCLUSIONS: DNA barcoding analyses of ITS and matK sequences showed a segregation of A. squarrosum from A. minus into separate clades in Maximum-Likelhood dendrograms. ITS analysis can be successfully used to characterize A. squarrosum populations growing quite distant from each other. The data obtained in this work provide the basis for further investigations on A. squarrosum population structure and may play a role in the screening of sand rice plants growing in desert and semi-desert environments of Central Asia and China.
[Pt] Publication type:JOURNAL ARTICLE
[Em] Entry month:1711
[Cu] Class update date: 171123
[Lr] Last revision date:171123
[St] Status:In-Process
[do] DOI:10.1186/s12870-017-1132-1

  10 / 935 MEDLINE  
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[PMID]: 28934362
[Au] Autor:Yao PC; Gao HY; Wei YN; Zhang JH; Chen XY; Li HQ
[Ad] Address:School of Life Sciences, East China Normal University, Shanghai, China.
[Ti] Title:Evaluating sampling strategy for DNA barcoding study of coastal and inland halo-tolerant Poaceae and Chenopodiaceae: A case study for increased sample size.
[So] Source:PLoS One;12(9):e0185311, 2017.
[Is] ISSN:1932-6203
[Cp] Country of publication:United States
[La] Language:eng
[Ab] Abstract:Environmental conditions in coastal salt marsh habitats have led to the development of specialist genetic adaptations. We evaluated six DNA barcode loci of the 53 species of Poaceae and 15 species of Chenopodiaceae from China's coastal salt marsh area and inland area. Our results indicate that the optimum DNA barcode was ITS for coastal salt-tolerant Poaceae and matK for the Chenopodiaceae. Sampling strategies for ten common species of Poaceae and Chenopodiaceae were analyzed according to optimum barcode. We found that by increasing the number of samples collected from the coastal salt marsh area on the basis of inland samples, the number of haplotypes of Arundinella hirta, Digitaria ciliaris, Eleusine indica, Imperata cylindrica, Setaria viridis, and Chenopodium glaucum increased, with a principal coordinate plot clearly showing increased distribution points. The results of a Mann-Whitney test showed that for Digitaria ciliaris, Eleusine indica, Imperata cylindrica, and Setaria viridis, the distribution of intraspecific genetic distances was significantly different when samples from the coastal salt marsh area were included (P < 0.01). These results suggest that increasing the sample size in specialist habitats can improve measurements of intraspecific genetic diversity, and will have a positive effect on the application of the DNA barcodes in widely distributed species. The results of random sampling showed that when sample size reached 11 for Chloris virgata, Chenopodium glaucum, and Dysphania ambrosioides, 13 for Setaria viridis, and 15 for Eleusine indica, Imperata cylindrica and Chenopodium album, average intraspecific distance tended to reach stability. These results indicate that the sample size for DNA barcode of globally distributed species should be increased to 11-15.
[Mh] MeSH terms primary: Adaptation, Physiological
Chenopodiaceae/classification
Chenopodiaceae/physiology
DNA Barcoding, Taxonomic/methods
Poaceae/classification
Poaceae/physiology
Salinity
[Mh] MeSH terms secundary: Chenopodiaceae/genetics
DNA, Plant/genetics
Ecosystem
Genetic Variation
Poaceae/genetics
Sample Size
[Pt] Publication type:JOURNAL ARTICLE
[Nm] Name of substance:0 (DNA, Plant)
[Em] Entry month:1710
[Cu] Class update date: 171018
[Lr] Last revision date:171018
[Js] Journal subset:IM
[Da] Date of entry for processing:170922
[St] Status:MEDLINE
[do] DOI:10.1371/journal.pone.0185311


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