Table 4 An overview of studies on cell-free nucleic acid, authors, publishing journals, year of publication and PubMed citation ID
PMID | Title | Authors | Citation | First author | Journal/book | Publication year | PMCID | NIHMS ID | DOI |
|---|---|---|---|---|---|---|---|---|---|
30013526 | Extra-chromosomal DNA sequencing reveals episomal prophages capable of impacting virulence factor expression in Staphylococcus aureus | Deutsch DR, Utter B, Verratti KJ, Sichtig H, Tallon LJ, Fischetti VA | Front Microbiol. 2018 Jul 2;9:1406. https://doi.org/10.3389/fmicb.2018.01406. eCollection 2018 | Deutsch DR | Front Microbiol | 2018 | PMC6036120 | ||
30849712 | The role of transposable elements and DNA damage repair mechanisms in gene duplications and gene fusions in plant genomes | Krasileva KV | Curr Opin Plant Biol. 2019 Apr;48:18–25. https://doi.org/10.1016/j.pbi.2019.01.004. Epub 2019 Mar 5 | Krasileva KV | Curr Opin Plant Biol | 2019 | |||
31889879 | Isolation and characterization of two novel plasmids pCYM01 and pCYM02 of Cylindrospermum stagnale | Ganesan V, Raja R, Hemaiswarya S, Carvalho IS, Anand N | Saudi J Biol Sci. 2020 Jan;27(1):535–542. https://doi.org/10.1016/j.sjbs.2019.11.017. Epub 2019 Nov 23 | Ganesan V | Saudi J Biol Sci | 2020 | PMC6933252 | ||
27581613 | Uncovering novel mobile genetic elements and their dynamics through an extra-chromosomal sequencing approach | Deutsch DR, Utter B, Fischetti VA | Mob Genet Elements. 2016 May 17;6(4):e1189987. https://doi.org/10.1080/2159256X.2016.1189987. eCollection 2016 Jul-Aug | Deutsch DR | Mob Genet Elements | 2016 | PMC4993567 | ||
28936238 | Biodistribution, Uptake and Effects Caused by Cancer-Derived Extracellular Vesicles | Sadovska L, Santos CB, Kalniņa Z, Linē A | J Circ Biomark. 2015 Mar 25;4:2. https://doi.org/10.5772/60522. eCollection 2015 Jan-Dec | Sadovska L | J Circ Biomark | 2015 | PMC5572990 | ||
29593241 | Identification and DNA annotation of a plasmid isolated from Chromobacterium violaceum | Lima DC, Nyberg LK, Westerlund F, Batistuzzo de Medeiros SR | Sci Rep. 2018 Mar 28;8(1):5327. https://doi.org/10.1038/s41598-018-23708-5 | Lima DC | Sci Rep | 2018 | PMC5871888 | ||
20586577 | Plasmid segregation: how to survive as an extra piece of DNA | Salje J | Crit Rev Biochem Mol Biol. 2010 Aug;45(4):296–317. https://doi.org/10.3109/10409238.2010.494657 | Salje J | Crit Rev Biochem Mol Biol | 2010 | |||
10208801 | Development and evaluation of an extra chromosomal DNA-based PCR test for diagnosing bovine babesiosis | Salem GH, Liu X, Johnsrude JD, Dame JB, Roman Reddy G | Mol Cell Probes. 1999 Apr;13(2):107–13. https://doi.org/10.1006/mcpr.1998.0223 | Salem GH | Mol Cell Probes | 1999 | |||
25843804 | Extra-chromosomal DNA maintenance in Bacillus subtilis, dependence on flagellation factor FliF and moonlighting mediator EdmS | Hakumai Y, Shimomoto K, Ashiuchi M | Biochem Biophys Res Commun. 2015 May 15;460(4):1059–62. https://doi.org/10.1016/j.bbrc.2015.03.152. Epub 2015 Apr 3 | Hakumai Y | Biochem Biophys Res Commun | 2015 | |||
12212946 | The food safety perspective of antibiotic resistance | McDermott PF, Zhao S, Wagner DD, Simjee S, Walker RD, White DG | Anim Biotechnol. 2002 May;13(1):71–84. https://doi.org/10.1081/ABIO-120005771 | McDermott PF | Anim Biotechnol | 2002 | |||
28837318 | Rapid Isolation of Centromeres from Scheffersomyces stipitis | Cao M, Seetharam AS, Severin AJ, Shao Z | ACS Synth Biol. 2017 Nov 17;6(11):2028–2034. https://doi.org/10.1021/acssynbio.7b00166. Epub 2017 Sep 5 | Cao M | ACS Synth Biol | 2017 | |||
28391682 | Centromeric DNA facilitates nonconventional yeast genetic engineering | Cao M, Gao M, Lopez-Garcia CL, Wu Y, Seetharam AS, Severin AJ, Shao Z | ACS Synth Biol. 2017 Aug 18;6(8):1545–1553. https://doi.org/10.1021/acssynbio.7b00046. Epub 2017 Apr 25 | Cao M | ACS Synth Biol | 2017 | |||
24963913 | Beyond the chromosome: the prevalence of unique extra-chromosomal bacteriophages with integrated virulence genes in pathogenic Staphylococcus aureus | Utter B, Deutsch DR, Schuch R, Winer BY, Verratti K, Bishop-Lilly K, Sozhamannan S, Fischetti VA | PLoS One. 2014 Jun 25;9(6):e100502. https://doi.org/10.1371/journal.pone.0100502. eCollection 2014 | Utter B | PLoS One | 2014 | PMC4070920 | 10.1371/journal.pone.0100502 | |
29602465 | The presence of tumour extra-chromosomal circular DNA (ecDNA) as a component of liquid biopsy in blood | Khatami F, Larijani B, Tavangar SM | Med Hypotheses. 2018 May;114:5–7. https://doi.org/10.1016/j.mehy.2018.02.018. Epub 2018 Feb 26 | Khatami F | Med Hypotheses | 2018 | |||
10382074 | The degradation profile of extra-chromosomal circular DNA during cisplatin-induced apoptosis is consistent with preferential cleavage at matrix attachment regions | Schoenlein PV, Barrett JT, Welter D | Chromosoma. 1999 May;108(2):121–31. https://doi.org/10.1007/s004120050359 | Schoenlein PV | Chromosoma | 1999 | |||
19424419 | Repair-mediated duplication by capture of proximal chromosomal DNA has shaped vertebrate genome evolution | Pace JK 2nd, Sen SK, Batzer MA, Feschotte C | PLoS Genet. 2009 May;5(5):e1000469. https://doi.org/10.1371/journal.pgen.1000469. Epub 2009 May 8 | Pace JK 2nd | PLoS Genet | 2009 | PMC2671141 | ||
1335022 | Extra-chromosomal human immunodeficiency virus type 1 DNA forms in fresh peripheral blood lymphocytes and in two interleukin-2-independent T cell lines derived from peripheral blood lymphocytes of an asymptomatic seropositive subject | Titti F, Borsetti A, Federico M, Testa U, Meccia E, Samoggia P, Peschle C, Verani P, Rossi GB | J Gen Virol. 1992 Dec;73 ( Pt 12):3087–97. https://doi.org/10.1099/0022-1317-73-12-3087 | Titti F | J Gen Virol | 1992 | |||
21170331 | Relationships linking amplification level to gene over-expression in gliomas | Vogt N, Gibaud A, Almeida A, Ourliac-Garnier I, Debatisse M, Malfoy B | PLoS One. 2010 Dec 8;5(12):e14249. https://doi.org/10.1371/journal.pone.0014249 | Vogt N | PLoS One | 2010 | PMC2999539 | ||
5009519 | The timing of meiosis and DNA synthesis during early oogenesis in the toad, Xenopus laevis | Coggins LW, Gall JG | J Cell Biol. 1972 Mar;52(3):569–76. https://doi.org/10.1083/jcb.52.3.569 | Coggins LW | J Cell Biol | 1972 | PMC2108647 | ||
20365401 | Plasmid copy number noise in monoclonal populations of bacteria | Wong Ng J, Chatenay D, Robert J, Poirier MG | Phys Rev E Stat Nonlin Soft Matter Phys. 2010 Jan;81(1 Pt 1):011909. https://doi.org/10.1103/PhysRevE.81.011909. Epub 2010 Jan 14 | Wong Ng J | Phys Rev E Stat Nonlin Soft Matter Phys | 2010 | |||
23568537 | Inverse metabolic engineering to improve Escherichia coli as an N-glycosylation host | Pandhal J, Woodruff LB, Jaffe S, Desai P, Ow SY, Noirel J, Gill RT, Wright PC | Biotechnol Bioeng. 2013 Sep;110(9):2482–93. https://doi.org/10.1002/bit.24920. Epub 2013 May 17 | Pandhal J | Biotechnol Bioeng | 2013 | |||
2927424 | Effect of DNA damage on stable transformation of mammalian cells with integrative and episomal plasmids | Vos JM, Hanawalt PC | Mutat Res. 1989 Mar-May;220(2–3):205–20. https://doi.org/10.1016/0165-1110(89)90025-0 | Vos JM | Mutat Res | 1989 | |||
20039170 | Co-existence of multidrug-resistant and multidrug-susceptible strains of Pseudomonas aeruginosa from a single clinical isolate | Mahida K, Kwon DH | Curr Microbiol. 2010 Jul;61(1):19–24. https://doi.org/10.1007/s00284-009-9570-0. Epub 2009 Dec 29 | Mahida K | Curr Microbiol | 2010 | |||
11515790 | Glioblastoma-related gene mutations and over-expression of functional epidermal growth factor receptors in SKMG-3 glioma cells | Thomas C, Ely G, James CD, Jenkins R, Kastan M, Jedlicka A, Burger P, Wharen R | Acta Neuropathol. 2001 Jun;101(6):605–15. https://doi.org/10.1007/s004010000332 | Thomas C | Acta Neuropathol | 2001 | |||
19763421 | Cloning and molecular characterization of a novel rolling-circle replicating plasmid, pK1S-1, from Bacillus thuringiensis subsp. kurstaki K1 | Li MS, Roh JY, Tao X, Yu ZN, Liu ZD, Liu Q, Xu HG, Shim HJ, Kim YS, Wang Y, Choi JY, Je YH | J Microbiol. 2009 Aug;47(4):466–72. https://doi.org/10.1007/s12275-009-0020-2. Epub 2009 Sep 9 | Li MS | J Microbiol | 2009 | |||
9844068 | A novel method of extracting plasmid DNA from Helicobacter species | De Ungria MC, Tillett D, Neilan BA, Cox PT, Lee A | Helicobacter. 1998 Dec;3(4):269–77. https://doi.org/10.1111/j.1523-5378.1997.06085.pp.x-i1 | De Ungria MC | Helicobacter | 1998 | |||
23514143 | Topological similarity between the 2 μm plasmid partitioning locus and the budding yeast centromere: evidence for a common evolutionary origin? | Jayaram M, Chang KM, Ma CH, Huang CC, Liu YT, Sau S | Biochem Soc Trans. 2013 Apr;41(2):501–7. https://doi.org/10.1042/BST20120224 | Jayaram M | Biochem Soc Trans | 2013 | |||
16093317 | High-frequency gene targeting in Arabidopsis plants expressing the yeast RAD54 gene | Shaked H, Melamed-Bessudo C, Levy AA | Proc Natl Acad Sci U S A. 2005 Aug 23;102(34):12,265–9. https://doi.org/10.1073/pnas.0502601102. Epub 2005 Aug 10 | Shaked H | Proc Natl Acad Sci U S A | 2005 | PMC1189313 | ||
11997466 | Genome-wide screening for trait conferring genes using DNA microarrays | Gill RT, Wildt S, Yang YT, Ziesman S, Stephanopoulos G | Proc Natl Acad Sci U S A. 2002 May 14;99(10):7033–8. https://doi.org/10.1073/pnas.102154799. Epub 2002 May 7 | Gill RT | Proc Natl Acad Sci U S A | 2002 | PMC124523 | ||
17109398 | Targeted gene delivery to differentiated skeletal muscle: a tool to study dedifferentiation | Morrison JI, Lööf S, He P, Aleström P, Collas P, Simon A | Dev Dyn. 2007 Feb;236(2):481–8. https://doi.org/10.1002/dvdy.21019 | Morrison JI | Dev Dyn | 2007 | |||
17148179 | The evolution of a conjugative plasmid and its ability to increase bacterial fitness | Dionisio F, Conceição IC, Marques AC, Fernandes L, Gordo I | Biol Lett. 2005 Jun 22;1(2):250–2. https://doi.org/10.1098/rsbl.2004.0275 | Dionisio F | Biol Lett | 2005 | PMC1626229 | ||
816990 | Extra-chromosomal DNA in chloramphenicol resistant myxococcus strains | Brown NL, Parish JH | J Gen Microbiol. 1976 Mar;93(1):63–8. https://doi.org/10.1099/00221287-93-1-63 | Brown NL | J Gen Microbiol | 1976 | 10.1099/00221287–93-1–63 | ||
12386375 | Development of a Nuclear Export Signal Trapping Method for Isolating Genes with HIV Rev Activity | Zhang MJ, Dayton AI | J Biomed Sci. 1997 Nov-Dec;4(6):289–294. https://doi.org/10.1007/BF02258352 | Zhang MJ | J Biomed Sci | 1997 | |||
3796319 | Plasmid-like properties of the four virulence-associated factors of Yersinia pestis | Tsukano H, Wake A, Sakakibara Y | Microbiol Immunol. 1986;30(9):837–48. https://doi.org/10.1111/j.1348-0421.1986.tb03011.x | Tsukano H | Microbiol Immunol | 1986 | |||
12850476 | Localization of HTLV-I tax proviral DNA in mononuclear cells | Zucker-Franklin D, Pancake BA, Najfeld V | Blood Cells Mol Dis. 2003 Jul-Aug;31(1):1–6. https://doi.org/10.1016/s1079-9796(03)00124-4 | Zucker-Franklin D | Blood Cells Mol Dis | 2003 | |||
2550376 | Replication of latent Epstein-Barr virus genomes in normal and malignant lymphoid cells | Adams A, Pozos TC, Purvey HV | Int J Cancer. 1989 Sep 15;44(3):560–4. https://doi.org/10.1002/ijc.2910440331 | Adams A | Int J Cancer | 1989 | |||
12604348 | Double-stranded RNA can mediate the suppression of uracil phosphoribosyltransferase expression in Toxoplasma gondii | Al-Anouti F, Quach T, Ananvoranich S | Biochem Biophys Res Commun. 2003 Mar 7;302(2):316–23. https://doi.org/10.1016/s0006-291x(03)00172-4 | Al-Anouti F | Biochem Biophys Res Commun | 2003 | |||
5804897 | Extra-chromosomal DNA in early stages of oogenesis in Acheta domesticus | Cave MD, Allen ER | J Cell Sci. 1969 May;4(3):593–609 | Cave MD | J Cell Sci | 1969 | |||