{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,3,13]],"date-time":"2026-03-13T03:31:09Z","timestamp":1773372669877,"version":"3.50.1"},"reference-count":45,"publisher":"Springer Science and Business Media LLC","issue":"1","content-domain":{"domain":["link.springer.com"],"crossmark-restriction":false},"short-container-title":["BMC Bioinformatics"],"published-print":{"date-parts":[[2008,12]]},"abstract":"<jats:title>Abstract<\/jats:title><jats:sec><jats:title>Background<\/jats:title><jats:p>Microsatellite (simple sequence repeat \u2013 SSR) and single nucleotide polymorphism (SNP) markers are two types of important genetic markers useful in genetic mapping and genotyping. Often, large-scale genomic research projects require high-throughput computer-assisted primer design. Numerous such web-based or standard-alone programs for PCR primer design are available but vary in quality and functionality. In particular, most programs lack batch primer design capability. Such a high-throughput software tool for designing SSR flanking primers and SNP genotyping primers is increasingly demanded.<\/jats:p><\/jats:sec><jats:sec><jats:title>Results<\/jats:title><jats:p>A new web primer design program, BatchPrimer3, is developed based on Primer3. BatchPrimer3 adopted the Primer3 core program as a major primer design engine to choose the best primer pairs. A new score-based primer picking module is incorporated into BatchPrimer3 and used to pick position-restricted primers. BatchPrimer3 v1.0 implements several types of primer designs including generic primers, SSR primers together with SSR detection, and SNP genotyping primers (including single-base extension primers, allele-specific primers, and tetra-primers for tetra-primer ARMS PCR), as well as DNA sequencing primers. DNA sequences in FASTA format can be batch read into the program. The basic information of input sequences, as a reference of parameter setting of primer design, can be obtained by pre-analysis of sequences. The input sequences can be pre-processed and masked to exclude and\/or include specific regions, or set targets for different primer design purposes as in Primer3Web and primer3Plus. A tab-delimited or Excel-formatted primer output also greatly facilitates the subsequent primer-ordering process. Thousands of primers, including wheat conserved intron-flanking primers, wheat genome-specific SNP genotyping primers, and<jats:italic>Brachypodium<\/jats:italic>SSR flanking primers in several genome projects have been designed using the program and validated in several laboratories.<\/jats:p><\/jats:sec><jats:sec><jats:title>Conclusion<\/jats:title><jats:p>BatchPrimer3 is a comprehensive web primer design program to develop different types of primers in a high-throughput manner. Additional methods of primer design can be easily integrated into future versions of BatchPrimer3. The program with source code and thousands of PCR and sequencing primers designed for wheat and<jats:italic>Brachypodium<\/jats:italic>are accessible at<jats:ext-link xmlns:xlink=\"http:\/\/www.w3.org\/1999\/xlink\" xlink:href=\"http:\/\/wheat.pw.usda.gov\/demos\/BatchPrimer3\/\" ext-link-type=\"uri\">http:\/\/wheat.pw.usda.gov\/demos\/BatchPrimer3\/<\/jats:ext-link>.<\/jats:p><\/jats:sec>","DOI":"10.1186\/1471-2105-9-253","type":"journal-article","created":{"date-parts":[[2008,5,29]],"date-time":"2008-05-29T18:14:43Z","timestamp":1212084883000},"update-policy":"https:\/\/doi.org\/10.1007\/springer_crossmark_policy","source":"Crossref","is-referenced-by-count":665,"title":["BatchPrimer3: A high throughput web application for PCR and sequencing primer design"],"prefix":"10.1186","volume":"9","author":[{"given":"Frank M","family":"You","sequence":"first","affiliation":[]},{"given":"Naxin","family":"Huo","sequence":"additional","affiliation":[]},{"given":"Yong Qiang","family":"Gu","sequence":"additional","affiliation":[]},{"given":"Ming-cheng","family":"Luo","sequence":"additional","affiliation":[]},{"given":"Yaqin","family":"Ma","sequence":"additional","affiliation":[]},{"given":"Dave","family":"Hane","sequence":"additional","affiliation":[]},{"given":"Gerard R","family":"Lazo","sequence":"additional","affiliation":[]},{"given":"Jan","family":"Dvorak","sequence":"additional","affiliation":[]},{"given":"Olin D","family":"Anderson","sequence":"additional","affiliation":[]}],"member":"297","published-online":{"date-parts":[[2008,5,29]]},"reference":[{"issue":"5","key":"2238_CR1","doi-asserted-by":"publisher","first-page":"91","DOI":"10.5897\/AJB2003.000-1019","volume":"2","author":"KA Abd-Elsalam","year":"2003","unstructured":"Abd-Elsalam KA: Bioinformatics tools and guideline for PCR primer design. Africa Journal of Biotechnology 2003, 2(5):91\u201395.","journal-title":"Africa Journal of Biotechnology"},{"issue":"1","key":"2238_CR2","doi-asserted-by":"publisher","first-page":"4","DOI":"10.1186\/1746-4811-2-4","volume":"2","author":"X Yang","year":"2006","unstructured":"Yang X, Scheffler BE, Weston LA: Recent developments in primer design for DNA polymorphism and mRNA profiling in higher plants. Plant Methods 2006, 2(1):4. 10.1186\/1746-4811-2-4","journal-title":"Plant Methods"},{"key":"2238_CR3","first-page":"365","volume-title":"Bioinformatics Methods and Protocols: Methods in Molecular Biology","author":"S Rozen","year":"2000","unstructured":"Rozen S, Skaletsky HJ: Primer3 on the WWW for general users and for biologist programmers. In Bioinformatics Methods and Protocols: Methods in Molecular Biology. Edited by: Krawetz S, Misener S. Totowa, NJ , Humana Press; 2000:365\u2013386."},{"issue":"10","key":"2238_CR4","doi-asserted-by":"publisher","first-page":"1289","DOI":"10.1093\/bioinformatics\/btm091","volume":"23","author":"T Koressaar","year":"2007","unstructured":"Koressaar T, Remm M: Enhancements and modifications of primer design program Primer3. Bioinformatics 2007, 23(10):1289\u20131291. 10.1093\/bioinformatics\/btm091","journal-title":"Bioinformatics"},{"issue":"Web Server issu","key":"2238_CR5","doi-asserted-by":"publisher","first-page":"W71","DOI":"10.1093\/nar\/gkm306","volume":"35","author":"A Untergasser","year":"2007","unstructured":"Untergasser A, Nijveen H, Rao X, Bisseling T, Geurts R, Leunissen JA: Primer3Plus, an enhanced web interface to Primer3. Nucleic Acids Res 2007, 35(Web Server issue):W71\u20134. 10.1093\/nar\/gkm306","journal-title":"Nucleic Acids Res"},{"issue":"Web Server issu","key":"2238_CR6","doi-asserted-by":"publisher","first-page":"W656","DOI":"10.1093\/nar\/gkl083","volume":"34","author":"E Jewell","year":"2006","unstructured":"Jewell E, Robinson A, Savage D, Erwin T, Love CG, Lim GA, Li X, Batley J, Spangenberg GC, Edwards D: SSRPrimer and SSR Taxonomy Tree: Biome SSR discovery. Nucleic Acids Res 2006, 34(Web Server issue):W656\u20139. 10.1093\/nar\/gkl083","journal-title":"Nucleic Acids Res"},{"issue":"1","key":"2238_CR7","doi-asserted-by":"publisher","first-page":"80","DOI":"10.1093\/jhered\/esi015","volume":"96","author":"ZL Hu","year":"2005","unstructured":"Hu ZL, Glenn K, Ramos AM, Otieno CJ, Reecy JM, Rothschild MF: Expeditor: a pipeline for designing primers using human gene structure and livestock animal EST information. J Hered 2005, 96(1):80\u201382. 10.1093\/jhered\/esi015","journal-title":"J Hered"},{"issue":"3","key":"2238_CR8","doi-asserted-by":"publisher","first-page":"385","DOI":"10.1093\/bioinformatics\/bti006","volume":"21","author":"S Weckx","year":"2005","unstructured":"Weckx S, De Rijk P, Van Broeckhoven C, Del-Favero J: SNPbox: a modular software package for large-scale primer design. Bioinformatics 2005, 21(3):385\u2013387. 10.1093\/bioinformatics\/bti006","journal-title":"Bioinformatics"},{"issue":"4","key":"2238_CR9","doi-asserted-by":"publisher","first-page":"591","DOI":"10.1093\/bioinformatics\/btg473","volume":"20","author":"MJ van Baren","year":"2004","unstructured":"van Baren MJ, Heutink P: The PCR suite. Bioinformatics 2004, 20(4):591\u2013593. 10.1093\/bioinformatics\/btg473","journal-title":"Bioinformatics"},{"issue":"1","key":"2238_CR10","doi-asserted-by":"publisher","first-page":"98","DOI":"10.1093\/bioinformatics\/17.1.98","volume":"17","author":"G Raddatz","year":"2001","unstructured":"Raddatz G, Dehio M, Meyer TF, Dehio C: PrimeArray: genome-scale primer design for DNA-microarray construction. Bioinformatics 2001, 17(1):98\u201399. 10.1093\/bioinformatics\/17.1.98","journal-title":"Bioinformatics"},{"issue":"1","key":"2238_CR11","doi-asserted-by":"publisher","first-page":"48","DOI":"10.1016\/j.tibtech.2004.11.005","volume":"23","author":"RK Varshney","year":"2005","unstructured":"Varshney RK, Graner A, Sorrells ME: Genic microsatellite markers in plants: features and applications. Trends Biotechnol 2005, 23(1):48\u201355. 10.1016\/j.tibtech.2004.11.005","journal-title":"Trends Biotechnol"},{"key":"2238_CR12","doi-asserted-by":"publisher","first-page":"215","DOI":"10.1016\/S1360-1385(96)86898-0","volume":"1","author":"W Powell","year":"1996","unstructured":"Powell W, Marchray GC, Provan J: Polymorphism revalued by simple sequence repeats. Trends Plant Sci 1996, 1: 215\u2013222.","journal-title":"Trends Plant Sci"},{"issue":"8","key":"2238_CR13","doi-asserted-by":"publisher","first-page":"1441","DOI":"10.1101\/gr.184001","volume":"11","author":"S Temnykh","year":"2001","unstructured":"Temnykh S, DeClerck G, Lukashova A, Lipovich L, Cartinhour S, McCouch S: Computational and experimental analysis of microsatellites in rice (Oryza sativa L.): frequency, length variation, transposon associations, and genetic marker potential. Genome Res 2001, 11(8):1441\u20131452. 10.1101\/gr.184001","journal-title":"Genome Res"},{"key":"2238_CR14","volume-title":"Plant & Animal Genomes XIV","author":"J Dvorak","year":"2007","unstructured":"Dvorak J, Akhunov ED, Akhunova AR, Anderson OD, Anderson JA, Blake N, Clegg MT, Coleman-Derr D, Conley EJ, Crossman CC, Deal KR, Dubcovsky J, Gill BS, Gu YQ, Hadam J, Heo HY, Huo N, Lazo GR, Lundy KE, Luo MC, Ma YQ, Matthews DE, McGuire PE, Morrell P, Qualset CO, Renfro J, Reynolds S, Dindo T, Talbert LE, Tian C, Toleno D, Warburton M, You FM, Zhang W: Wheat SNP markers: development, mapping and deployment. In Plant & Animal Genomes XIV. San Diego, USA ; 2007."},{"key":"2238_CR15","doi-asserted-by":"publisher","first-page":"181","DOI":"10.1016\/j.forsciint.2004.10.020","volume":"154","author":"B Sobrino","year":"2005","unstructured":"Sobrino B, Brion M, Carracedo A: SNPs in forensic genetics: a review on SNP typing methodologies. Forensic Sci Int 2005, 154: 181\u2013194. 10.1016\/j.forsciint.2004.10.020","journal-title":"Forensic Sci Int"},{"issue":"17","key":"2238_CR16","doi-asserted-by":"publisher","first-page":"E88","DOI":"10.1093\/nar\/29.17.e88","volume":"29","author":"S Ye","year":"2001","unstructured":"Ye S, Dhillon S, Ke X, Collins AR, Day IN: An efficient procedure for genotyping single nucleotide polymorphisms. Nucleic Acids Res 2001, 29(17):E88\u20138. 10.1093\/nar\/29.17.e88","journal-title":"Nucleic Acids Res"},{"key":"2238_CR17","first-page":"133","volume-title":"PCR primer, A Laboratory Manual","author":"CW Dieffenbatch","year":"1995","unstructured":"Dieffenbatch CW, Lowe TMJ, Dveksler GS: General concepts fpr PCR primer design. In PCR primer, A Laboratory Manual. Edited by: Dieffenbatch CW, Dveksler GS. New York , Cold Spring Harbor Laboratory Press; 1995:133\u2013155."},{"issue":"11","key":"2238_CR18","doi-asserted-by":"publisher","first-page":"3746","DOI":"10.1073\/pnas.83.11.3746","volume":"83","author":"KJ Breslauer","year":"1986","unstructured":"Breslauer KJ, Frank R, Blocker H, Marky LA: Predicting DNA duplex stability from the base sequence. Proc Natl Acad Sci USA 1986, 83(11):3746\u20133750. 10.1073\/pnas.83.11.3746","journal-title":"Proc Natl Acad Sci USA"},{"issue":"4","key":"2238_CR19","doi-asserted-by":"publisher","first-page":"1460","DOI":"10.1073\/pnas.95.4.1460","volume":"95","author":"J SantaLucia Jr.","year":"1998","unstructured":"SantaLucia J Jr.: A unified view of polymer, dumbbell, and oligonucleotide DNA nearest-neighbor thermodynamics. Proc Natl Acad Sci USA 1998, 95(4):1460\u20131465. 10.1073\/pnas.95.4.1460","journal-title":"Proc Natl Acad Sci USA"},{"key":"2238_CR20","unstructured":"SSR finder[ftp:\/\/gramene.org\/pub\/gramene\/software\/scripts\/ssr.pl]"},{"issue":"5","key":"2238_CR21","doi-asserted-by":"crossref","first-page":"492","DOI":"10.1101\/gr.9.5.492","volume":"9","author":"X Chen","year":"1999","unstructured":"Chen X, Levine L, Kwok PY: Fluorescence polarization in homogeneous nucleic acid analysis. Genome Res 1999, 9(5):492\u2013498.","journal-title":"Genome Res"},{"issue":"3","key":"2238_CR22","first-page":"560, 562, 564","volume":"31","author":"TM Hsu","year":"2001","unstructured":"Hsu TM, Chen X, Duan S, Miller RD, Kwok PY: Universal SNP genotyping assay with fluorescence polarization detection. Biotechniques 2001, 31(3):560, 562, 564\u20138, passim.","journal-title":"Biotechniques"},{"key":"2238_CR23","doi-asserted-by":"publisher","first-page":"42","DOI":"10.1016\/S1046-2023(05)80124-0","volume":"2","author":"L Ugozzoli Wallance,","year":"1991","unstructured":"Ugozzoli L Wallance, RB: Allele-specific polymerase chain reaction. Methods Enzymol 1991, 2: 42\u201348. 10.1016\/S1046-2023(05)80124-0","journal-title":"Methods Enzymol"},{"issue":"7","key":"2238_CR24","doi-asserted-by":"publisher","first-page":"2503","DOI":"10.1093\/nar\/17.7.2503","volume":"17","author":"CR Newton","year":"1989","unstructured":"Newton CR, Graham A, Heptinstall LE, Powell SJ, Summers C, Kalsheker N, Smith JC, Markham AF: Analysis of any point mutation in DNA. The amplification refractory mutation system (ARMS). Nucleic Acids Res 1989, 17(7):2503\u20132516. 10.1093\/nar\/17.7.2503","journal-title":"Nucleic Acids Res"},{"issue":"4","key":"2238_CR25","doi-asserted-by":"publisher","first-page":"1483","DOI":"10.1104\/pp.124.4.1483","volume":"124","author":"E Drenkard","year":"2000","unstructured":"Drenkard E, Richter BG, Rozen S, Stutius LM, Angell NA, Mindrinos M, Cho RJ, Oefner PJ, Davis RW, Ausubel FM: A simple procedure for the analysis of single nucleotide polymorphisms facilitates map-based cloning in Arabidopsis. Plant Physiol 2000, 124(4):1483\u20131492. 10.1104\/pp.124.4.1483","journal-title":"Plant Physiol"},{"issue":"1","key":"2238_CR26","doi-asserted-by":"crossref","first-page":"130","DOI":"10.1007\/s00122-003-1223-2","volume":"107","author":"W Zhang","year":"2003","unstructured":"Zhang W, Gianibelli MC, Ma W, Rampling L, Gale KR: Identification of SNPs and development of allele-specific PCR markers for gamma-gliadin alleles in Triticum aestivum. Theor Appl Genet 2003, 107(1):130\u2013138.","journal-title":"Theor Appl Genet"},{"issue":"2","key":"2238_CR27","doi-asserted-by":"publisher","first-page":"358","DOI":"10.1007\/s00122-005-0137-6","volume":"112","author":"PC Bundock","year":"2006","unstructured":"Bundock PC, Cross MJ, Shapter FM, Henry RJ: Robust allele-specific polymerase chain reaction markers developed for single nucleotide polymorphisms in expressed barley sequences. Theor Appl Genet 2006, 112(2):358\u2013365. 10.1007\/s00122-005-0137-6","journal-title":"Theor Appl Genet"},{"issue":"2","key":"2238_CR28","doi-asserted-by":"publisher","first-page":"251","DOI":"10.1007\/s00122-006-0290-6","volume":"113","author":"K Hayashi","year":"2006","unstructured":"Hayashi K, Yoshida H, Ashikawa I: Development of PCR-based allele-specific and InDel marker sets for nine rice blast resistance genes. Theor Appl Genet 2006, 113(2):251\u2013260. 10.1007\/s00122-006-0290-6","journal-title":"Theor Appl Genet"},{"key":"2238_CR29","first-page":"45","volume-title":"Laboratory methods for the Detection of Mutations and Polymorphisms in DNA","author":"S Little","year":"1997","unstructured":"Little S: ARMS analysis of point mutations. In Laboratory methods for the Detection of Mutations and Polymorphisms in DNA. Edited by: Taylor, G.R.. Boca Raton, FL , CRC Press; 1997:45\u201351."},{"issue":"3","key":"2238_CR30","doi-asserted-by":"publisher","first-page":"202","DOI":"10.1016\/j.mcp.2006.12.001","volume":"21","author":"JI Ruiz-Sanz","year":"2007","unstructured":"Ruiz-Sanz JI, Aurrekoetxea I, Ruiz del Agua A, Ruiz-Larrea MB: Detection of catechol-O-methyltransferase Val158Met polymorphism by a simple one-step tetra-primer amplification refractory mutation system-PCR. Mol Cell Probes 2007, 21(3):202\u2013207. 10.1016\/j.mcp.2006.12.001","journal-title":"Mol Cell Probes"},{"issue":"3","key":"2238_CR31","doi-asserted-by":"publisher","first-page":"198","DOI":"10.1111\/j.1365-2052.2007.01588.x","volume":"38","author":"I Leyva-Baca","year":"2007","unstructured":"Leyva-Baca I, Schenkel F, Sharma BS, Jansen GB, Karrow NA: Identification of single nucleotide polymorphisms in the bovine CCL2, IL8, CCR2 and IL8RA genes and their association with health and production in Canadian Holsteins. Anim Genet 2007, 38(3):198\u2013202. 10.1111\/j.1365-2052.2007.01588.x","journal-title":"Anim Genet"},{"issue":"2","key":"2238_CR32","doi-asserted-by":"publisher","first-page":"414","DOI":"10.1139\/g03-130","volume":"47","author":"E Chiapparino","year":"2004","unstructured":"Chiapparino E, Lee D, Donini P: Genotyping single nucleotide polymorphisms in barley by tetra-primer ARMS-PCR. Genome 2004, 47(2):414\u2013420.","journal-title":"Genome"},{"issue":"1","key":"2238_CR33","doi-asserted-by":"publisher","first-page":"13","DOI":"10.1515\/CCLM.2004.004","volume":"42","author":"N Okayama","year":"2004","unstructured":"Okayama N, Fujimura K, Nakamura J, Suehiro Y, Hamanaka Y, Hinoda Y: Evaluation of a new efficient procedure for single-nucleotide polymorphism genotyping: tetra-primer amplification refractory mutation system-polymerase chain reaction. Clin Chem Lab Med 2004, 42(1):13\u201316. 10.1515\/CCLM.2004.004","journal-title":"Clin Chem Lab Med"},{"issue":"4","key":"2238_CR34","first-page":"579","volume":"27","author":"F Guan","year":"2005","unstructured":"Guan F, Yang LG, An JT, Liu SR, Shi GQ: Development of a rapid mismatch PCR method using tetra-primer ARMS for detection of BMPR-IB gene mutation in sheep. Yi Chuan 2005, 27(4):579\u2013583.","journal-title":"Yi Chuan"},{"issue":"4","key":"2238_CR35","doi-asserted-by":"publisher","first-page":"739","DOI":"10.1373\/clinchem.2005.060137","volume":"52","author":"P Piccioli","year":"2006","unstructured":"Piccioli P, Serra M, Gismondi V, Pedemonte S, Loiacono F, Lastraioli S, Bertario L, De Angioletti M, Varesco L, Notaro R: Multiplex tetra-primer amplification refractory mutation system PCR to detect 6 common germline mutations of the MUTYH gene associated with polyposis and colorectal cancer. Clin Chem 2006, 52(4):739\u2013743. 10.1373\/clinchem.2005.060137","journal-title":"Clin Chem"},{"issue":"5","key":"2238_CR36","doi-asserted-by":"publisher","first-page":"1152","DOI":"10.1093\/nar\/20.5.1152","volume":"20","author":"S Ye","year":"1992","unstructured":"Ye S, Humphries S, Green F: Allele specific amplification by tetra-primer PCR. Nucleic Acids Res 1992, 20(5):1152. 10.1093\/nar\/20.5.1152","journal-title":"Nucleic Acids Res"},{"key":"2238_CR37","unstructured":"Tetra-primer ARMS-PCR[http:\/\/cedar.genetics.soton.ac.uk\/public_html\/primer1.html]"},{"issue":"2","key":"2238_CR38","doi-asserted-by":"publisher","first-page":"701","DOI":"10.1534\/genetics.104.034868","volume":"168","author":"LL Qi","year":"2004","unstructured":"Qi LL, Echalier B, Chao S, Lazo GR, Butler GE, Anderson OD, Akhunov ED, Dvorak J, Linkiewicz AM, Ratnasiri A, Dubcovsky J, Bermudez-Kandianis CE, Greene RA, Kantety R, La Rota CM, Munkvold JD, Sorrells SF, Sorrells ME, Dilbirligi M, Sidhu D, Erayman M, Randhawa HS, Sandhu D, Bondareva SN, Gill KS, Mahmoud AA, Ma XF, Miftahudin, Gustafson JP, Conley EJ, Nduati V, Gonzalez-Hernandez JL, Anderson JA, Peng JH, Lapitan NL, Hossain KG, Kalavacharla V, Kianian SF, Pathan MS, Zhang DS, Nguyen HT, Choi DW, Fenton RD, Close TJ, McGuire PE, Qualset CO, Gill BS: A chromosome bin map of 16,000 expressed sequence tag loci and distribution of genes among the three genomes of polyploid wheat. Genetics 2004, 168(2):701\u2013712. 10.1534\/genetics.104.034868","journal-title":"Genetics"},{"issue":"6","key":"2238_CR39","doi-asserted-by":"publisher","first-page":"1295","DOI":"10.1007\/s00122-004-1743-4","volume":"109","author":"NK Blake","year":"2004","unstructured":"Blake NK, Sherman JD, Dvorak J, Talbert LE: Genome-specific primer sets for starch biosynthesis genes in wheat. Theor Appl Genet 2004, 109(6):1295\u20131302. 10.1007\/s00122-004-1743-4","journal-title":"Theor Appl Genet"},{"key":"2238_CR40","unstructured":"Wheat conserved primers[http:\/\/wheat.pw.usda.gov\/SNP\/new\/pcr_primers.shtml]"},{"key":"2238_CR41","unstructured":"BatchPrimer3[http:\/\/wheat.pw.usda.gov\/demos\/BatchPrimer3\/]"},{"issue":"9","key":"2238_CR42","doi-asserted-by":"publisher","first-page":"1099","DOI":"10.1139\/g06-087","volume":"49","author":"N Huo","year":"2006","unstructured":"Huo N, Gu YQ, Lazo GR, Vogel JP, Coleman-Derr D, Luo MC, Thilmony R, Garvin DF, Anderson OD: Construction and characterization of two BAC libraries from Brachypodium distachyon, a new model for grass genomics. Genome 2006, 49(9):1099\u20131108. 10.1139\/G06-087","journal-title":"Genome"},{"issue":"2","key":"2238_CR43","doi-asserted-by":"publisher","first-page":"135","DOI":"10.1007\/s10142-007-0062-7","volume":"8","author":"N Huo","year":"2008","unstructured":"Huo N, Lazo GR, Vogel JP, You FM, Ma Y, Hayden DM, Coleman-Derr D, Hill TA, Dvorak J, Anderson OD, Luo MC, Gu YQ: The nuclear genome of Brachypodium distachyon: analysis of BAC end sequences. Funct Integr Genomics 2008, 8(2):135\u2013147. 10.1007\/s10142-007-0062-7","journal-title":"Funct Integr Genomics"},{"key":"2238_CR44","doi-asserted-by":"publisher","first-page":"S69","DOI":"10.2135\/cropsci2007.06.0332tpg","volume":"48","author":"DF Garvin","year":"2008","unstructured":"Garvin DF, Gu YQ, Hasterok R, Hazen SP, Jenkins G, Mockler TC, Mur AL, Vogel JP: Development of genetic and genomic research resources for Brachypodium distachyon, a new model system for grass crop research. Crop Sci 2008, 48: S69-S84. 10.2135\/cropsci2007.06.0332tpg","journal-title":"Crop Sci"},{"key":"2238_CR45","unstructured":"SSR screening and primers in Brachypodium BAC end sequences[http:\/\/brachypodium.pw.usda.gov\/SSR\/]"}],"container-title":["BMC Bioinformatics"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/link.springer.com\/content\/pdf\/10.1186\/1471-2105-9-253.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2023,5,18]],"date-time":"2023-05-18T15:10:14Z","timestamp":1684422614000},"score":1,"resource":{"primary":{"URL":"https:\/\/bmcbioinformatics.biomedcentral.com\/articles\/10.1186\/1471-2105-9-253"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2008,5,29]]},"references-count":45,"journal-issue":{"issue":"1","published-print":{"date-parts":[[2008,12]]}},"alternative-id":["2238"],"URL":"https:\/\/doi.org\/10.1186\/1471-2105-9-253","relation":{},"ISSN":["1471-2105"],"issn-type":[{"value":"1471-2105","type":"electronic"}],"subject":[],"published":{"date-parts":[[2008,5,29]]},"assertion":[{"value":"26 October 2007","order":1,"name":"received","label":"Received","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"29 May 2008","order":2,"name":"accepted","label":"Accepted","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"29 May 2008","order":3,"name":"first_online","label":"First Online","group":{"name":"ArticleHistory","label":"Article History"}}],"article-number":"253"}}