{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,3,30]],"date-time":"2026-03-30T21:10:36Z","timestamp":1774905036106,"version":"3.50.1"},"reference-count":35,"publisher":"Oxford University Press (OUP)","issue":"4","content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2010,2,15]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:p>Motivation: The phenomenon of strand symmetry, which may provide clues to genome evolution, exists in all prokaryotic and eukaryotic genomes studied. Several possible mechanisms for its origins have been proposed, including: no strand biases for mutation and selection, strand inversion and selection of stem-loop structures. However, the relative contributions of these mechanisms to strand symmetry are not clear. In this article, we studied specifically the role of stem-loop potential of single-stranded DNA in strand symmetry.<\/jats:p>\n               <jats:p>Results: We analyzed the complete genomes of 90 prokaryotes. We found that most oligonucleotides (pentanucleotides and higher) do not have a reverse complement in close proximity in the genomic sequences. Combined with further analysis, we conclude that the contribution of the widespread stem-loop potential of single-stranded genomic DNA to the formation and maintenance of strand symmetry would be very limited, at least for higher-order oligonucleotides. Therefore, other possible causes for strand symmetry must be taken into account to a deeper degree.<\/jats:p>\n               <jats:p>Contacts: \u00a0lsszsh@mail.sysu.edu.cn; molevol@mail.sysu.edu.cn<\/jats:p>\n               <jats:p>Supplementary information: \u00a0Supplementary data are available at Bioinformatics online.<\/jats:p>","DOI":"10.1093\/bioinformatics\/btp703","type":"journal-article","created":{"date-parts":[[2009,12,24]],"date-time":"2009-12-24T01:52:12Z","timestamp":1261619532000},"page":"478-485","source":"Crossref","is-referenced-by-count":27,"title":["Limited contribution of stem-loop potential to symmetry of single-stranded genomic DNA"],"prefix":"10.1093","volume":"26","author":[{"given":"Shang-Hong","family":"Zhang","sequence":"first","affiliation":[{"name":"The Key Laboratory of Gene Engineering of Ministry of Education, and Biotechnology Research Center, Sun Yat-sen University, Guangzhou 510275, China"}]},{"given":"Ya-Zhi","family":"Huang","sequence":"additional","affiliation":[{"name":"The Key Laboratory of Gene Engineering of Ministry of Education, and Biotechnology Research Center, Sun Yat-sen University, Guangzhou 510275, China"}]}],"member":"286","published-online":{"date-parts":[[2009,12,22]]},"reference":[{"key":"2023012508020347300_B1","doi-asserted-by":"crossref","first-page":"17828","DOI":"10.1073\/pnas.0605553103","article-title":"Asymptotically increasing compliance of genomes with Chargaff's second parity rules through inversions and inverted transpositions","volume":"103","author":"Albrecht-Buehler","year":"2006","journal-title":"Proc. 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