scholarly journals Distinguishing Among Evolutionary Forces Acting on Genome-Wide Base Composition: Computer Simulation Analysis of Approximate Methods for Inferring Site Frequency Spectra of Derived Mutations

2018 ◽  
Vol 8 (5) ◽  
pp. 1755-1769
Author(s):  
Tomotaka Matsumoto ◽  
Hiroshi Akashi
1999 ◽  
Author(s):  
R. Wade Allen ◽  
Theodore J. Rosenthal ◽  
David H. Klyde ◽  
Jeffrey R. Hogue

1993 ◽  
Vol 50 (3) ◽  
pp. 359-367 ◽  
Author(s):  
M. A. Berkovsky

A generalized hydrodynamic model is used to evaluate the frequency spectra of longitudinal and transverse modes in dense strongly coupled two-component plasmas. The results are compared with available computer simulation data.


2006 ◽  
Vol 18 (Supplement) ◽  
pp. 123-123
Author(s):  
AOI OZAKI ◽  
KAZUYUKI MITSUI ◽  
SHIN INADA ◽  
NITARO SHIBATA ◽  
MARK R. BOYETT ◽  
...  

2020 ◽  
Vol 6 (7) ◽  
pp. eaax5097 ◽  
Author(s):  
Arun Durvasula ◽  
Sriram Sankararaman

While introgression from Neanderthals and Denisovans has been documented in modern humans outside Africa, the contribution of archaic hominins to the genetic variation of present-day Africans remains poorly understood. We provide complementary lines of evidence for archaic introgression into four West African populations. Our analyses of site frequency spectra indicate that these populations derive 2 to 19% of their genetic ancestry from an archaic population that diverged before the split of Neanderthals and modern humans. Using a method that can identify segments of archaic ancestry without the need for reference archaic genomes, we built genome-wide maps of archaic ancestry in the Yoruba and the Mende populations. Analyses of these maps reveal segments of archaic ancestry at high frequency in these populations that represent potential targets of adaptive introgression. Our results reveal the substantial contribution of archaic ancestry in shaping the gene pool of present-day West African populations.


Author(s):  
Y. Ito ◽  
H. Komizo ◽  
T. Meguro ◽  
Y. Daido ◽  
I. Umebu

1994 ◽  
Vol 42 (4) ◽  
pp. 467 ◽  
Author(s):  
OJ Reichman ◽  
E Roberts

A number of hypotheses have been proposed to explain the mechanisms that promote coexistence among sympatric rodents in North American deserts. In an effort to determine how the distribution of seeds influences foraging patterns and coexistence in a three-species community of heteromyid rodents, we developed a computer simulation model that determines the efficiency of foraging for animals of different sizes. Specifically, the simulation determines how long it would take a forager to gather sufficient energy for 24 h if the animal stopped at seed patches of certain densities. The analyses were conducted for naturally occurring seed distributions and densities, for simulated normal and uniform distributions at natural densities, and for natural distributions at seed densities one-third those known to occur naturally. The results indicate that, under natural distributions and densities, each of the three species possessed unique optima for utilising seed patches of different density. However, when either the seed distribution or density differed from actual values, all three species had identical optima. The implications of these results for promoting coexistence are discussed.


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