Whole genome comparisons of serotype 4b and 1/2a strains of the food-borne pathogen Listeria monocytogenes reveal new insights into the core genome components of this species

Karen E. Nelson; Derrick E. Fouts; Emmanuel F. Mongodin; Jacques Ravel; Robert T. DeBoy; James F. Kolonay; David A. Rasko; Samuel V. Angiuoli; Steven R. Gill; Ian T. Paulsen; Jeremy Peterson; Owen White; William C. Nelson; William Nierman; Maureen J. Beanan; Lauren M. Brinkac; Sean C. Daugherty; Robert J. Dodson; A. Scott Durkin; Ramana Madupu; Daniel H. Haft; Jeremy Selengut; Susan Van Aken; Hoda Khouri; Nadia Fedorova; Heather Forberger; Bao Tran; Sophia Kathariou; Laura D. Wonderling; Gaylen A. Uhlich; Darrel O. Bayles; John B. Luchansky; Claire M. Fraser

doi:10.1093/nar/gkh562

Whole genome comparisons of serotype 4b and 1/2a strains of the food-borne pathogen Listeria monocytogenes reveal new insights into the core genome components of this species

Karen E. Nelson^*, Derrick E. Fouts, Emmanuel F. Mongodin, Jacques Ravel, Robert T. DeBoy, James F. Kolonay, David A. Rasko, Samuel V. Angiuoli, Steven R. Gill, Ian T. Paulsen, Jeremy Peterson, Owen White, William C. Nelson, William Nierman, Maureen J. Beanan, Lauren M. Brinkac, Sean C. Daugherty, Robert J. Dodson, A. Scott Durkin, Ramana MadupuDaniel H. Haft, Jeremy Selengut, Susan Van Aken, Hoda Khouri, Nadia Fedorova, Heather Forberger, Bao Tran, Sophia Kathariou, Laura D. Wonderling, Gaylen A. Uhlich, Darrel O. Bayles, John B. Luchansky, Claire M. Fraser

^*Corresponding author for this work

Research output: Contribution to journal › Article › peer-review

348 Citations (Scopus)

Abstract

The genomes of three strains of Listeria monocytogenes that have been associated with food-borne illness in the USA were subjected to whole genome comparative analysis. A total of 51, 97 and 69 strain-specific genes were identified in L.monocytogenes strains F2365 (serotype 4b, cheese isolate), F6854 (serotype 1/2a, frankfurter isolate) and H7858 (serotype 4b, meat isolate), respectively. Eighty-three genes were restricted to serotype 1/2a and 51 to serotype 4b strains. These strain- and serotype-specific genes probably contribute to observed differences in pathogenicity, and the ability of the organisms to survive and grow in their respective environmental niches. The serotype 1/2a-specific genes include an operon that encodes the rhamnose biosynthetic pathway that is associated with teichoic acid biosynthesis, as well as operons for five glycosyl transferases and an adenine-specific DNA methyltransferase. A total of 8603 and 105 050 high quality single nucleotide polymorphisms (SNPs) were found on the draft genome sequences of strain H7858 and strain F6854, respectively, when compared with strain F2365. Whole genome comparative analyses revealed that the L.monocytogenes genomes are essentially syntenic, with the majority of genomic differences consisting of phage insertions, transposable elements and SNPs.

Original language	English
Pages (from-to)	2386-2395
Number of pages	10
Journal	Nucleic Acids Research
Volume	32
Issue number	8
DOIs	https://doi.org/10.1093/nar/gkh562
Publication status	Published - 2004
Externally published	Yes

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Nelson, K. E., Fouts, D. E., Mongodin, E. F., Ravel, J., DeBoy, R. T., Kolonay, J. F., Rasko, D. A., Angiuoli, S. V., Gill, S. R., Paulsen, I. T., Peterson, J., White, O., Nelson, W. C., Nierman, W., Beanan, M. J., Brinkac, L. M., Daugherty, S. C., Dodson, R. J., Durkin, A. S., ... Fraser, C. M. (2004). Whole genome comparisons of serotype 4b and 1/2a strains of the food-borne pathogen Listeria monocytogenes reveal new insights into the core genome components of this species. Nucleic Acids Research, 32(8), 2386-2395. https://doi.org/10.1093/nar/gkh562

Nelson, Karen E. ; Fouts, Derrick E. ; Mongodin, Emmanuel F. ; Ravel, Jacques ; DeBoy, Robert T. ; Kolonay, James F. ; Rasko, David A. ; Angiuoli, Samuel V. ; Gill, Steven R. ; Paulsen, Ian T. ; Peterson, Jeremy ; White, Owen ; Nelson, William C. ; Nierman, William ; Beanan, Maureen J. ; Brinkac, Lauren M. ; Daugherty, Sean C. ; Dodson, Robert J. ; Durkin, A. Scott ; Madupu, Ramana ; Haft, Daniel H. ; Selengut, Jeremy ; Van Aken, Susan ; Khouri, Hoda ; Fedorova, Nadia ; Forberger, Heather ; Tran, Bao ; Kathariou, Sophia ; Wonderling, Laura D. ; Uhlich, Gaylen A. ; Bayles, Darrel O. ; Luchansky, John B. ; Fraser, Claire M. / Whole genome comparisons of serotype 4b and 1/2a strains of the food-borne pathogen Listeria monocytogenes reveal new insights into the core genome components of this species. In: Nucleic Acids Research. 2004 ; Vol. 32, No. 8. pp. 2386-2395.

@article{3078aa979a1f419da449db6af426c2f4,

title = "Whole genome comparisons of serotype 4b and 1/2a strains of the food-borne pathogen Listeria monocytogenes reveal new insights into the core genome components of this species",

abstract = "The genomes of three strains of Listeria monocytogenes that have been associated with food-borne illness in the USA were subjected to whole genome comparative analysis. A total of 51, 97 and 69 strain-specific genes were identified in L.monocytogenes strains F2365 (serotype 4b, cheese isolate), F6854 (serotype 1/2a, frankfurter isolate) and H7858 (serotype 4b, meat isolate), respectively. Eighty-three genes were restricted to serotype 1/2a and 51 to serotype 4b strains. These strain- and serotype-specific genes probably contribute to observed differences in pathogenicity, and the ability of the organisms to survive and grow in their respective environmental niches. The serotype 1/2a-specific genes include an operon that encodes the rhamnose biosynthetic pathway that is associated with teichoic acid biosynthesis, as well as operons for five glycosyl transferases and an adenine-specific DNA methyltransferase. A total of 8603 and 105 050 high quality single nucleotide polymorphisms (SNPs) were found on the draft genome sequences of strain H7858 and strain F6854, respectively, when compared with strain F2365. Whole genome comparative analyses revealed that the L.monocytogenes genomes are essentially syntenic, with the majority of genomic differences consisting of phage insertions, transposable elements and SNPs.",

author = "Nelson, {Karen E.} and Fouts, {Derrick E.} and Mongodin, {Emmanuel F.} and Jacques Ravel and DeBoy, {Robert T.} and Kolonay, {James F.} and Rasko, {David A.} and Angiuoli, {Samuel V.} and Gill, {Steven R.} and Paulsen, {Ian T.} and Jeremy Peterson and Owen White and Nelson, {William C.} and William Nierman and Beanan, {Maureen J.} and Brinkac, {Lauren M.} and Daugherty, {Sean C.} and Dodson, {Robert J.} and Durkin, {A. Scott} and Ramana Madupu and Haft, {Daniel H.} and Jeremy Selengut and {Van Aken}, Susan and Hoda Khouri and Nadia Fedorova and Heather Forberger and Bao Tran and Sophia Kathariou and Wonderling, {Laura D.} and Uhlich, {Gaylen A.} and Bayles, {Darrel O.} and Luchansky, {John B.} and Fraser, {Claire M.}",

year = "2004",

doi = "10.1093/nar/gkh562",

language = "English",

volume = "32",

pages = "2386--2395",

journal = "Nucleic Acids Research",

issn = "0305-1048",

publisher = "Oxford University Press",

number = "8",

}

Nelson, KE, Fouts, DE, Mongodin, EF, Ravel, J, DeBoy, RT, Kolonay, JF, Rasko, DA, Angiuoli, SV, Gill, SR, Paulsen, IT, Peterson, J, White, O, Nelson, WC, Nierman, W, Beanan, MJ, Brinkac, LM, Daugherty, SC, Dodson, RJ, Durkin, AS, Madupu, R, Haft, DH, Selengut, J, Van Aken, S, Khouri, H, Fedorova, N, Forberger, H, Tran, B, Kathariou, S, Wonderling, LD, Uhlich, GA, Bayles, DO, Luchansky, JB & Fraser, CM 2004, 'Whole genome comparisons of serotype 4b and 1/2a strains of the food-borne pathogen Listeria monocytogenes reveal new insights into the core genome components of this species', Nucleic Acids Research, vol. 32, no. 8, pp. 2386-2395. https://doi.org/10.1093/nar/gkh562

Whole genome comparisons of serotype 4b and 1/2a strains of the food-borne pathogen Listeria monocytogenes reveal new insights into the core genome components of this species. / Nelson, Karen E.; Fouts, Derrick E.; Mongodin, Emmanuel F.; Ravel, Jacques; DeBoy, Robert T.; Kolonay, James F.; Rasko, David A.; Angiuoli, Samuel V.; Gill, Steven R.; Paulsen, Ian T.; Peterson, Jeremy; White, Owen; Nelson, William C.; Nierman, William; Beanan, Maureen J.; Brinkac, Lauren M.; Daugherty, Sean C.; Dodson, Robert J.; Durkin, A. Scott; Madupu, Ramana; Haft, Daniel H.; Selengut, Jeremy; Van Aken, Susan; Khouri, Hoda; Fedorova, Nadia; Forberger, Heather; Tran, Bao; Kathariou, Sophia; Wonderling, Laura D.; Uhlich, Gaylen A.; Bayles, Darrel O.; Luchansky, John B.; Fraser, Claire M.

In: Nucleic Acids Research, Vol. 32, No. 8, 2004, p. 2386-2395.

Research output: Contribution to journal › Article › peer-review

TY - JOUR

T1 - Whole genome comparisons of serotype 4b and 1/2a strains of the food-borne pathogen Listeria monocytogenes reveal new insights into the core genome components of this species

AU - Nelson, Karen E.

AU - Fouts, Derrick E.

AU - Mongodin, Emmanuel F.

AU - Ravel, Jacques

AU - DeBoy, Robert T.

AU - Kolonay, James F.

AU - Rasko, David A.

AU - Angiuoli, Samuel V.

AU - Gill, Steven R.

AU - Paulsen, Ian T.

AU - Peterson, Jeremy

AU - White, Owen

AU - Nelson, William C.

AU - Nierman, William

AU - Beanan, Maureen J.

AU - Brinkac, Lauren M.

AU - Daugherty, Sean C.

AU - Dodson, Robert J.

AU - Durkin, A. Scott

AU - Madupu, Ramana

AU - Haft, Daniel H.

AU - Selengut, Jeremy

AU - Van Aken, Susan

AU - Khouri, Hoda

AU - Fedorova, Nadia

AU - Forberger, Heather

AU - Tran, Bao

AU - Kathariou, Sophia

AU - Wonderling, Laura D.

AU - Uhlich, Gaylen A.

AU - Bayles, Darrel O.

AU - Luchansky, John B.

AU - Fraser, Claire M.

PY - 2004

Y1 - 2004

N2 - The genomes of three strains of Listeria monocytogenes that have been associated with food-borne illness in the USA were subjected to whole genome comparative analysis. A total of 51, 97 and 69 strain-specific genes were identified in L.monocytogenes strains F2365 (serotype 4b, cheese isolate), F6854 (serotype 1/2a, frankfurter isolate) and H7858 (serotype 4b, meat isolate), respectively. Eighty-three genes were restricted to serotype 1/2a and 51 to serotype 4b strains. These strain- and serotype-specific genes probably contribute to observed differences in pathogenicity, and the ability of the organisms to survive and grow in their respective environmental niches. The serotype 1/2a-specific genes include an operon that encodes the rhamnose biosynthetic pathway that is associated with teichoic acid biosynthesis, as well as operons for five glycosyl transferases and an adenine-specific DNA methyltransferase. A total of 8603 and 105 050 high quality single nucleotide polymorphisms (SNPs) were found on the draft genome sequences of strain H7858 and strain F6854, respectively, when compared with strain F2365. Whole genome comparative analyses revealed that the L.monocytogenes genomes are essentially syntenic, with the majority of genomic differences consisting of phage insertions, transposable elements and SNPs.

AB - The genomes of three strains of Listeria monocytogenes that have been associated with food-borne illness in the USA were subjected to whole genome comparative analysis. A total of 51, 97 and 69 strain-specific genes were identified in L.monocytogenes strains F2365 (serotype 4b, cheese isolate), F6854 (serotype 1/2a, frankfurter isolate) and H7858 (serotype 4b, meat isolate), respectively. Eighty-three genes were restricted to serotype 1/2a and 51 to serotype 4b strains. These strain- and serotype-specific genes probably contribute to observed differences in pathogenicity, and the ability of the organisms to survive and grow in their respective environmental niches. The serotype 1/2a-specific genes include an operon that encodes the rhamnose biosynthetic pathway that is associated with teichoic acid biosynthesis, as well as operons for five glycosyl transferases and an adenine-specific DNA methyltransferase. A total of 8603 and 105 050 high quality single nucleotide polymorphisms (SNPs) were found on the draft genome sequences of strain H7858 and strain F6854, respectively, when compared with strain F2365. Whole genome comparative analyses revealed that the L.monocytogenes genomes are essentially syntenic, with the majority of genomic differences consisting of phage insertions, transposable elements and SNPs.

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U2 - 10.1093/nar/gkh562

DO - 10.1093/nar/gkh562

M3 - Article

C2 - 15115801

AN - SCOPUS:2442531727

VL - 32

SP - 2386

EP - 2395

JO - Nucleic Acids Research

JF - Nucleic Acids Research

SN - 0305-1048

IS - 8

ER -