Two key events associated with a transposable element burst occurred during rice domestication Article Swipe
Jinfeng Chen
,
Lu Lu
,
Jazmine Benjamin
,
Stephanie Diaz
,
Chad N. Hancock
,
Jason Stajich
,
Susan R. Wessler
·
YOU?
·
· 2018
· Open Access
·
· DOI: https://doi.org/10.1101/405290
YOU?
·
· 2018
· Open Access
·
· DOI: https://doi.org/10.1101/405290
Transposable elements shape genome evolution through periodic bursts of amplification. In this study we exploited knowledge of the components of the mPing/Ping/Pong TE family in four rice strains undergoing mPing bursts to track their copy numbers and distribution in a large collection of genomes from the wild progenitor Oryza rufipogon and domesticated Oryza sativa (rice). We characterized two events that occurred to the autonomous Ping element and appear to be critical for mPing hyperactivity. First, a point mutation near the end of the element created a Ping variant ( Ping16A ) with reduced transposition. The proportion of strains with Ping16A has increased during domestication while the original Ping (Ping16G) has been dramatically reduced. Second, transposition of Ping16A into a Stowaway element generated a locus ( Ping16A_Stow ) whose presence correlates with strains that have high mPing copies. Finally, demonstration that Pong elements have been stably silenced in all strains analyzed indicates that sustained activity of the mPing/Ping family during domestication produced the components necessary for the mPing burst, not the loss of epigenetic regulation.
Related Topics
Concepts
Domestication
Transposable element
Oryza sativa
Biology
Transposition (logic)
Genetics
Genome
Gene
Computer science
Artificial intelligence
Metadata
- Type
- preprint
- Language
- en
- Landing Page
- https://doi.org/10.1101/405290
- https://www.biorxiv.org/content/biorxiv/early/2018/08/31/405290.full.pdf
- OA Status
- green
- References
- 46
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https://doi.org/10.1101/405290Digital Object Identifier
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Two key events associated with a transposable element burst occurred during rice domesticationWork title
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preprintOpenAlex work type
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enPrimary language
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2018Year of publication
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2018-08-31Full publication date if available
- Authors
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Jinfeng Chen, Lu Lu, Jazmine Benjamin, Stephanie Diaz, Chad N. Hancock, Jason Stajich, Susan R. WesslerList of authors in order
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https://doi.org/10.1101/405290Publisher landing page
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https://www.biorxiv.org/content/biorxiv/early/2018/08/31/405290.full.pdfDirect link to full text PDF
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greenOpen access status per OpenAlex
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| referenced_works | https://openalex.org/W1995524273, https://openalex.org/W2120611661, https://openalex.org/W2079308685, https://openalex.org/W2769187841, https://openalex.org/W2087726730, https://openalex.org/W2006066143, https://openalex.org/W2127367029, https://openalex.org/W2579769336, https://openalex.org/W2133148860, https://openalex.org/W2123362149, https://openalex.org/W2110594636, https://openalex.org/W2531715486, https://openalex.org/W2303542186, https://openalex.org/W2068918749, https://openalex.org/W2053824307, https://openalex.org/W2800434159, https://openalex.org/W2006378465, https://openalex.org/W2119595037, https://openalex.org/W2994296907, https://openalex.org/W2133932059, https://openalex.org/W1982828686, https://openalex.org/W2106590279, https://openalex.org/W2147069413, https://openalex.org/W2145968008, https://openalex.org/W2133758925, https://openalex.org/W2604708613, https://openalex.org/W2043116503, https://openalex.org/W2161633633, https://openalex.org/W2119444539, https://openalex.org/W2230276206, https://openalex.org/W2128371599, https://openalex.org/W2103441770, https://openalex.org/W2108234281, https://openalex.org/W2111281047, https://openalex.org/W2160969485, https://openalex.org/W2132926880, https://openalex.org/W2021341670, https://openalex.org/W2119180969, https://openalex.org/W2105329815, https://openalex.org/W2152956782, https://openalex.org/W2128505445, https://openalex.org/W2132378736, https://openalex.org/W2141052558, https://openalex.org/W2151409320, https://openalex.org/W2139406800, https://openalex.org/W1483456869 |
| referenced_works_count | 46 |
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| abstract_inverted_index.(Ping16G) | 109 |
| abstract_inverted_index.evolution | 5 |
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| cited_by_percentile_year | |
| countries_distinct_count | 1 |
| institutions_distinct_count | 7 |
| sustainable_development_goals[0].id | https://metadata.un.org/sdg/2 |
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| sustainable_development_goals[0].display_name | Zero hunger |
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| citation_normalized_percentile.is_in_top_10_percent | False |