Plant Molecular Phylogenetics and Evolutionary Genomics IV

A special issue of Plants (ISSN 2223-7747). This special issue belongs to the section "Plant Genetics, Genomics and Biotechnology".

Deadline for manuscript submissions: 31 December 2026 | Viewed by 513

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Belozersky Institute of Physico-Chemical Biology, Lomonosov Moscow State University, Leninskie Gory 1, Moscow 119991, Russia
Interests: plant molecular phylogeny and systematics; genome evolution; biodiversity; phytoplanktonic metagenome
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Dear Colleagues,

The primary aim of molecular phylogenetics and phylogenomics regarding its part in the genomics era is to infer the evolutionary relationships of living organisms by comparing the structures of their information macromolecules and whole genomes. However, this does not limit the role of molecular phylogenetic approaches in biological research. Molecular phylogenetics and phylogenomics now serve as blueprints for studies of genome organization and investigations in almost all biological disciplines. The evolutionary paradigm is a framework for studying the structural and functional basis of living beings. It is applied in a wide range of studies on taxonomy, biodiversity and its conservation, biogeography, population genetics, molecular ecology, and agrobiology.

This Special Issue of Plants is open to research articles on all aspects of plant molecular evolution, including molecular phylogenetics and systematics, phylogenomics, comparative genomics, phylotranscriptomics, gene families’ structure and evolution, cell organelles genomics, DNA barcoding and metabarcoding, molecular ecology and biodiversity, correspondence between molecular and morphological evolution, as well as the bioinformatics and laboratory methods of the aforementioned studies.

Prof. Dr. Alex Troitsky
Guest Editor

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The Special Issue, together with its publications, has been assigned to Section Plant Genetics, Genomics and Biotechnology on 16 December 2025. The publications remain available in the regular issues in which they were originally published. The Editorial Office confirms that these articles adhered to MDPI's standard editorial process (https://www.mdpi.com/editorial_process).

Keywords

  • molecular phylogeny
  • phylogenomics
  • phylotranscriptomics
  • chloroplast genome
  • mitochomdrial genome
  • evolutionary genomics
  • metagenomics
  • DNA barcoding
  • bioinformatics

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Published Papers (1 paper)

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Research

32 pages, 3795 KB  
Article
Evaluating Species Delimitation Methods in Chloroidium (Trebouxiophyceae, Chlorophyta): Efficacy of DNA Barcodes and Description of Chloroidium pseudoellipsoideum sp. nov. from Arctic Soils
by Elena Krivina, Maria Sinetova, Alexander Starikov, Aleksey Portnov and Anna Temraleeva
Plants 2025, 14(24), 3739; https://doi.org/10.3390/plants14243739 - 8 Dec 2025
Viewed by 230
Abstract
Despite extensive research into green microalgae belonging to the genus Chloroidium, their species diversity and biotechnological potential remain poorly characterized. The strain VKM Al-418, the subject of this study, was isolated from the soil of Duvannyi Yar (Russian Federation). The independent species [...] Read more.
Despite extensive research into green microalgae belonging to the genus Chloroidium, their species diversity and biotechnological potential remain poorly characterized. The strain VKM Al-418, the subject of this study, was isolated from the soil of Duvannyi Yar (Russian Federation). The independent species status of this strain is supported by distinct morphological characteristics, robust phylogenetic placement based on the 18S-ITS1-5.8S-ITS2 fragment, and unique features in the secondary structures of both ITS1 and ITS2, including one compensatory base change (CBC) in the highly conserved helix III of ITS2. Additionally, the species delimitation was also confirmed using five independent algorithmic approaches analyzing four different DNA barcodes. The concatenated ITS1-5.8S-ITS2 fragment is more reliable for species discrimination than the individual ITS1 or ITS2 barcodes. Of the species delimitation methods evaluated, ASAP (Assemble Species by Automatic Partitioning) and GMYC (Generalized Mixed Yule Coalescent) performed best in distinguishing Chloroidium species across multiple barcode regions in our analysis. The fatty acid profile of strain VKM Al-418 was analyzed at 9 °C, 22 °C, and 27 °C and exhibited high plasticity in response to temperature, indicative of an adaptive strategy to its harsh environment. Using this integrative taxonomic approach, we describe Chloroidium pseudoellipsoideum sp. nov., a new species with a distinct phylogenetic positioning and promising biotechnological properties. Full article
(This article belongs to the Special Issue Plant Molecular Phylogenetics and Evolutionary Genomics IV)
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