Dynamics of Escherichia coli type I‐E CRISPR spacers over 42 000 years

CRISPR‐Cas are nucleic acid‐based prokaryotic immune systems. CRISPR arrays accumulate spacers from foreign DNA and provide resistance to mobile genetic elements containing identical or similar sequences. Thus, the set of spacers present in a given bacterium can be regarded as a record of encounters...

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Published inMolecular ecology Vol. 26; no. 7; pp. 2019 - 2026
Main Authors Savitskaya, Ekaterina, Lopatina, Anna, Medvedeva, Sofia, Kapustin, Mikhail, Shmakov, Sergey, Tikhonov, Alexey, Artamonova, Irena I., Logacheva, Maria, Severinov, Konstantin
Format Journal Article
LanguageEnglish
Published England Blackwell Publishing Ltd 01.04.2017
Subjects
ancestry
Animals
bacteria
Biological Evolution
Clustered Regularly Interspaced Short Palindromic Repeats
CRISPR arrays
CRISPR spacers
DNA
DNA, Ancient
DNA, Bacterial - genetics
E coli
Escherichia coli
Escherichia coli - genetics
immune system
interspersed repetitive sequences
intestines
Intestines - microbiology
Mammoths - microbiology
Nucleic acids
palaeo DNA
Sequence Analysis, DNA
CRISPR arrays
CRISPR spacers
Escherichia coli
palaeo DNA
Online AccessGet full text
ISSN0962-1083
1365-294X
1365-294X
DOI10.1111/mec.13961

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Abstract CRISPR‐Cas are nucleic acid‐based prokaryotic immune systems. CRISPR arrays accumulate spacers from foreign DNA and provide resistance to mobile genetic elements containing identical or similar sequences. Thus, the set of spacers present in a given bacterium can be regarded as a record of encounters of its ancestors with genetic invaders. Such records should be specific for different lineages and change with time, as earlier acquired spacers get obsolete and are lost. Here, we studied type I‐E CRISPR spacers of Escherichia coli from extinct pachyderm. We find that many spacers recovered from intestines of a 42 000‐year‐old mammoth match spacers of present‐day E. coli. Present‐day CRISPR arrays can be reconstructed from palaeo sequences, indicating that the order of spacers has also been preserved. The results suggest that E. coli CRISPR arrays were not subject to intensive change through adaptive acquisition during this time.
AbstractList CRISPR ‐Cas are nucleic acid‐based prokaryotic immune systems. CRISPR arrays accumulate spacers from foreign DNA and provide resistance to mobile genetic elements containing identical or similar sequences. Thus, the set of spacers present in a given bacterium can be regarded as a record of encounters of its ancestors with genetic invaders. Such records should be specific for different lineages and change with time, as earlier acquired spacers get obsolete and are lost. Here, we studied type I‐E CRISPR spacers of Escherichia coli from extinct pachyderm. We find that many spacers recovered from intestines of a 42 000‐year‐old mammoth match spacers of present‐day E. coli . Present‐day CRISPR arrays can be reconstructed from palaeo sequences, indicating that the order of spacers has also been preserved. The results suggest that E. coli CRISPR arrays were not subject to intensive change through adaptive acquisition during this time.
CRISPR-Cas are nucleic acid-based prokaryotic immune systems. CRISPR arrays accumulate spacers from foreign DNA and provide resistance to mobile genetic elements containing identical or similar sequences. Thus, the set of spacers present in a given bacterium can be regarded as a record of encounters of its ancestors with genetic invaders. Such records should be specific for different lineages and change with time, as earlier acquired spacers get obsolete and are lost. Here, we studied type I-E CRISPR spacers of Escherichia coli from extinct pachyderm. We find that many spacers recovered from intestines of a 42 000-year-old mammoth match spacers of present-day E. coli . Present-day CRISPR arrays can be reconstructed from palaeo sequences, indicating that the order of spacers has also been preserved. The results suggest that E. coli CRISPR arrays were not subject to intensive change through adaptive acquisition during this time.
CRISPR-Cas are nucleic acid-based prokaryotic immune systems. CRISPR arrays accumulate spacers from foreign DNA and provide resistance to mobile genetic elements containing identical or similar sequences. Thus, the set of spacers present in a given bacterium can be regarded as a record of encounters of its ancestors with genetic invaders. Such records should be specific for different lineages and change with time, as earlier acquired spacers get obsolete and are lost. Here, we studied type I-E CRISPR spacers of Escherichia coli from extinct pachyderm. We find that many spacers recovered from intestines of a 42 000-year-old mammoth match spacers of present-day E. coli. Present-day CRISPR arrays can be reconstructed from palaeo sequences, indicating that the order of spacers has also been preserved. The results suggest that E. coli CRISPR arrays were not subject to intensive change through adaptive acquisition during this time.
CRISPR‐Cas are nucleic acid‐based prokaryotic immune systems. CRISPR arrays accumulate spacers from foreign DNA and provide resistance to mobile genetic elements containing identical or similar sequences. Thus, the set of spacers present in a given bacterium can be regarded as a record of encounters of its ancestors with genetic invaders. Such records should be specific for different lineages and change with time, as earlier acquired spacers get obsolete and are lost. Here, we studied type I‐E CRISPR spacers of Escherichia coli from extinct pachyderm. We find that many spacers recovered from intestines of a 42 000‐year‐old mammoth match spacers of present‐day E. coli. Present‐day CRISPR arrays can be reconstructed from palaeo sequences, indicating that the order of spacers has also been preserved. The results suggest that E. coli CRISPR arrays were not subject to intensive change through adaptive acquisition during this time.
CRISPR-Cas are nucleic acid-based prokaryotic immune systems. CRISPR arrays accumulate spacers from foreign DNA and provide resistance to mobile genetic elements containing identical or similar sequences. Thus, the set of spacers present in a given bacterium can be regarded as a record of encounters of its ancestors with genetic invaders. Such records should be specific for different lineages and change with time, as earlier acquired spacers get obsolete and are lost. Here, we studied type I-E CRISPR spacers of Escherichia coli from extinct pachyderm. We find that many spacers recovered from intestines of a 42 000-year-old mammoth match spacers of present-day E. coli. Present-day CRISPR arrays can be reconstructed from palaeo sequences, indicating that the order of spacers has also been preserved. The results suggest that E. coliCRISPR arrays were not subject to intensive change through adaptive acquisition during this time.
CRISPR-Cas are nucleic acid-based prokaryotic immune systems. CRISPR arrays accumulate spacers from foreign DNA and provide resistance to mobile genetic elements containing identical or similar sequences. Thus, the set of spacers present in a given bacterium can be regarded as a record of encounters of its ancestors with genetic invaders. Such records should be specific for different lineages and change with time, as earlier acquired spacers get obsolete and are lost. Here, we studied type I-E CRISPR spacers of Escherichia coli from extinct pachyderm. We find that many spacers recovered from intestines of a 42 000-year-old mammoth match spacers of present-day E. coli. Present-day CRISPR arrays can be reconstructed from palaeo sequences, indicating that the order of spacers has also been preserved. The results suggest that E. coli CRISPR arrays were not subject to intensive change through adaptive acquisition during this time.CRISPR-Cas are nucleic acid-based prokaryotic immune systems. CRISPR arrays accumulate spacers from foreign DNA and provide resistance to mobile genetic elements containing identical or similar sequences. Thus, the set of spacers present in a given bacterium can be regarded as a record of encounters of its ancestors with genetic invaders. Such records should be specific for different lineages and change with time, as earlier acquired spacers get obsolete and are lost. Here, we studied type I-E CRISPR spacers of Escherichia coli from extinct pachyderm. We find that many spacers recovered from intestines of a 42 000-year-old mammoth match spacers of present-day E. coli. Present-day CRISPR arrays can be reconstructed from palaeo sequences, indicating that the order of spacers has also been preserved. The results suggest that E. coli CRISPR arrays were not subject to intensive change through adaptive acquisition during this time.
Author Savitskaya, Ekaterina
Severinov, Konstantin
Tikhonov, Alexey
Kapustin, Mikhail
Lopatina, Anna
Artamonova, Irena I.
Medvedeva, Sofia
Logacheva, Maria
Shmakov, Sergey
AuthorAffiliation Institute of Gene Biology, Russian Academy of Sciences, Moscow, Russia
Zoological Institute, Russian Academy of Sciences, St. Petersburg, Russia
Skolkovo Institute of Science and Technology, Skolkovo, Russia
Institute of Applied Ecology of the North, North-Eastern Federal University, Yakutsk, Russia
M.V. Lomonosov Moscow State University, Moscow, Russia
Institute of Molecular Genetics, Russian Academy of Sciences, Moscow, Russia
Waksman Institute of Microbiology, Rutgers, the State University of New Jersey, Piscataway, NJ, USA
N.I. Vavilov Institute of General Genetics, Russian Academy of Sciences, Moscow, Russia
A.A. Kharkevich Institute of Information Transmission Problems, Russian Academy of Sciences, Moscow, Russia
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Keywords CRISPR arrays
CRISPR spacers
Escherichia coli
palaeo DNA
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Snippet CRISPR‐Cas are nucleic acid‐based prokaryotic immune systems. CRISPR arrays accumulate spacers from foreign DNA and provide resistance to mobile genetic...
CRISPR ‐Cas are nucleic acid‐based prokaryotic immune systems. CRISPR arrays accumulate spacers from foreign DNA and provide resistance to mobile genetic...
CRISPR-Cas are nucleic acid-based prokaryotic immune systems. CRISPR arrays accumulate spacers from foreign DNA and provide resistance to mobile genetic...
SourceID pubmedcentral
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pubmed
crossref
wiley
SourceType Open Access Repository
Aggregation Database
Index Database
Enrichment Source
Publisher
StartPage 2019
SubjectTerms ancestry
Animals
bacteria
Biological Evolution
Clustered Regularly Interspaced Short Palindromic Repeats
CRISPR arrays
CRISPR spacers
DNA
DNA, Ancient
DNA, Bacterial - genetics
E coli
Escherichia coli
Escherichia coli - genetics
immune system
interspersed repetitive sequences
intestines
Intestines - microbiology
Mammoths - microbiology
Nucleic acids
palaeo DNA
Sequence Analysis, DNA
Title Dynamics of Escherichia coli type I‐E CRISPR spacers over 42 000 years
URI https://onlinelibrary.wiley.com/doi/abs/10.1111%2Fmec.13961
https://www.ncbi.nlm.nih.gov/pubmed/27997045
https://www.proquest.com/docview/1887100234
https://www.proquest.com/docview/1851299300
https://www.proquest.com/docview/1891882539
https://www.proquest.com/docview/2000349281
https://pubmed.ncbi.nlm.nih.gov/PMC5851898
Volume 26
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