Browsing Bergen Open Research Archive by Author "Giannakis, Konstantinos"
Now showing items 1-7 of 7
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Avoiding misleading estimates using mtDNA heteroplasmy statistics to study bottleneck size and selection
Giannakis, Konstantinos; Broz, Amanda K.; Sloan, Daniel B.; Johnston, Iain (Journal article; Peer reviewed, 2023)Mitochondrial DNA heteroplasmy samples can shed light on vital developmental and genetic processes shaping mitochondrial DNA populations. The sample means and sample variance of a set of heteroplasmy observations are ... -
Avoiding organelle mutational meltdown across eukaryotes with or without a germline bottleneck
Edwards, David; Røyrvik, Ellen Christine; Chustecki, Joanne; Giannakis, Konstantinos; Glastad, Robert Clay; Radzvilavicius, Arunas; Johnston, Iain (Journal article; Peer reviewed, 2021)Mitochondrial DNA (mtDNA) and plastid DNA (ptDNA) encode vital bioenergetic apparatus, and mutations in these organelle DNA (oDNA) molecules can be devastating. In the germline of several animals, a genetic “bottleneck” ... -
Comparing Structure and Dynamics of Transition Graphs by the Symmetric Difference Metric Over an Edge-Filtration
Pascual, Belen Garcia; Salbu, Lars Moberg; Renz, Jessica; Giannakis, Konstantinos; Johnston, Iain (Journal article; Peer reviewed, 2024)Transition graphs or transition diagrams, describing the rates and probabilities with which a system changes between discrete states, are common throughout the sciences. In many cases, parameterisations of transition graphs ... -
Evolutionary inference across eukaryotes identifies universal features shaping organelle gene retention
Giannakis, Konstantinos; Arrowsmith, Samuel J.; Richards, Luke; Gasparini, Sara; Chustecki, Joanna M.; Røyrvik, Ellen Christine; Johnston, Iain (Journal article; Peer reviewed, 2022)Mitochondria and plastids power complex life. Why some genes and not others are retained in their organelle DNA (oDNA) genomes remains a debated question. Here, we attempt to identify the properties of genes and associated ... -
Exchange on dynamic encounter networks allows plant mitochondria to collect complete sets of mitochondrial DNA products despite their incomplete genomes
Giannakis, Konstantinos; Chustecki, Joanna M.; Johnston, Iain George (Journal article; Peer reviewed, 2022)Mitochondria in plant cells usually contain less than a full copy of the mitochondrial DNA (mtDNA) genome. Here, we asked whether mitochondrial dynamics may allow individual mitochondria to ‘collect’ a full set of mtDNA-encoded ... -
HyperTraPS-CT: Inference and prediction for accumulation pathways with flexible data and model structures
Aga, Olav Nicolay Larsson; Brun, Morten; Dauda, Kazeem Adesina; Diaz-Uriarte, Ramon; Giannakis, Konstantinos; Johnston, Iain (Journal article; Peer reviewed, 2024-09-04)Accumulation processes, where many potentially coupled features are acquired over time, occur throughout the sciences from evolutionary biology to disease progression, and particularly in the study of cancer progression. ... -
Impact of drone route geometry on information collection in wireless sensor networks
Konstantinos, Skiadopoulos; Giannakis, Konstantinos; Tsipis, Athanasios; Oikonomou, Konstantinos; Stavrakakis, Ioannis (Journal article; Peer reviewed, 2020-09)The recent technological evolution of drones along with the constantly growing maturity of its commercialization, has led to the emergence of novel drone-based applications within the field of wireless sensor networks for ...