scholarly journals SELVa: Simulator of Evolution with Landscape Variation

2019 ◽  
Author(s):  
Elena Nabieva ◽  
Georgii A. Bazykin
Keyword(s):  
Landscape Change ◽  
Arbitrary Shape ◽  
Fitness Landscape ◽  
Link Type ◽  
Substitution Process ◽  
Individual Site ◽  
Flexible Framework ◽  
Landscape Variation

Organisms evolve to increase their fitness, a process that may be described as climbing the fitness landscape. However, the fitness landscape of an individual site, i.e., the vector of fitness values corresponding to different variants at this site, can change with time due to changes in the environment or substitutions at other epistatically interacting sites. We present SELVa, the Simulator of Evolution with Landscape Variation, aimed at modeling the substitution process under a changing single position fitness landscape in a set of evolving lineages forming a phylogeny of arbitrary shape. Written in Java and distributed as an executable jar file, SELVa provides a flexible framework that allows the user to choose from a number of implemented rules governing landscape change.Availabilityhttps://github.com/bazykinlab/SELVa

scholarly journals SELVa: Simulator of evolution with landscape variation

PLoS ONE ◽  
2020 ◽  
Vol 15 (12) ◽  
pp. e0242225 ◽  
Author(s):  
Elena Nabieva ◽  
Georgii A. Bazykin
Keyword(s):  
Molecular Evolution ◽  
Landscape Change ◽  
Arbitrary Shape ◽  
Fitness Landscape ◽  
Substitution Process ◽  
Individual Site ◽  
Flexible Framework ◽  
Landscape Variation

Organisms evolve to increase their fitness, a process that may be described as climbing the fitness landscape. However, the fitness landscape of an individual site, i.e., the vector of fitness values corresponding to different variants at this site, can itself change with time due to changes in the environment or substitutions at other epistatically interacting sites. While there exist a number of simulators for modeling different aspects of molecular evolution, very few can accommodate changing landscapes. We present SELVa, the Simulator of Evolution with Landscape Variation, aimed at modeling the substitution process under a changing single-position fitness landscape in a set of evolving lineages that form a phylogeny of arbitrary shape. Written in Java and distributed as an executable jar file, SELVa provides a flexible framework that allows the user to choose from a number of implemented rules governing landscape change.

SIG 15 Perspectives Vol. 20, No. 3, September 2015

2015 ◽  
Vol 20 (3) ◽  
Keyword(s):  
Learning Center ◽  
Link Type

Abstract Download the CE Questions PDF from the toolbar, above. Use the questions to guide your Perspectives reading. When you're ready, purchase the activity from the ASHA Store and follow the instructions to take the exam in ASHA's Learning Center. Available until August 13, 2018.

SIG 11 Perspectives Vol. 22, No. 2, July 2012

2012 ◽  
Vol 22 (2) ◽  
Author(s):  
Kathryn Taylor ◽  
Emily White ◽  
Rachael Kaplan ◽  
Colleen M. O'Rourke
Keyword(s):  
Link Type

Sorry, this activity is no longer available for CEUs. Visit the SIG 11 page on the ASHA Store to see available CE activities. Use the CE questions PDF here as study questions to guide your Perspectives reading.

SIG 14 Perspectives Vol. 20, No. 3, December 2013

2013 ◽  
Vol 20 (3) ◽  
Keyword(s):  
Link Type

Sorry, this activity is no longer available for CEUs. Visit the SIG 14 page on the ASHA Store to see available CE activities. Use the CE questions PDF here as study questions to guide your Perspectives reading.

SIG 17 Perspectives Vol. 2, No. 1, May 2012

2012 ◽  
Vol 2 (1) ◽  
pp. 1-5
Author(s):  
Celeste Domsch
Keyword(s):  
Link Type

Sorry, this activity is no longer available for CEUs. Visit the SIG 17 page on the ASHA Store to see available CE activities. Use the CE questions PDF here as study questions to guide your Perspectives reading.

SIG 12 Perspectives Vol. 21, No. 4, December 2012

2012 ◽  
Vol 21 (4) ◽  
pp. 1-6 ◽  
Author(s):  
Cathy Binger ◽  
Jennifer Kent-Walsh
Keyword(s):  
Link Type

Sorry, this activity is no longer available for CEUs. Visit the SIG 12 page on the ASHA Store to see available CE activities. Use the CE questions PDF here as study questions to guide your Perspectives reading.

SIG 7 Perspectives Vol. 20, No. 3, December 2013

2013 ◽  
Vol 20 (3) ◽  
Keyword(s):  
Link Type

Sorry, this activity is no longer available for CEUs. Visit the SIG 7 page on the ASHA Store to see available CE activities. Use the CE questions PDF here as study questions to guide your Perspectives reading.

SIG 12 Perspectives Vol. 22, No. 1, April 2013

2013 ◽  
Vol 22 (1) ◽  
pp. 1-5
Author(s):  
Ellen M. Hickey ◽  
Monica McKenna ◽  
Celeste Woods ◽  
Carmen Archibald
Keyword(s):  
Link Type

Sorry, this activity is no longer available for CEUs. Visit the SIG 12 page on the ASHA Store to see available CE activities. Use the CE questions PDF here as study questions to guide your Perspectives reading.

SIG 10 Perspectives Vol. 18, No. 2, October 2015

2015 ◽  
Vol 18 (2) ◽  
Keyword(s):  
Learning Center ◽  
Link Type

Download the CE Questions PDF from the toolbar, above. Use the questions to guide your Perspectives reading. When you're ready, purchase the activity from the ASHA Store and follow the instructions to take the exam in ASHA's Learning Center. Available until July 30, 2018.

SIG 9 Perspectives Vol. 25, No. 1, April 2015

2015 ◽  
Vol 25 (1) ◽  
Keyword(s):  
Learning Center ◽  
Link Type

Download the CE Questions PDF from the toolbar, above. Use the questions to guide your Perspectives reading. When you're ready, purchase the activity from the ASHA Store and follow the instructions to take the exam in ASHA's Learning Center. Available until February 3, 2018.

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