DeepTetrad: high-throughput analysis of meiotic tetrads by deep learning in plants

Meiotic crossovers facilitate chromosome segregation and create new combinations of alleles in gametes. Crossover frequency varies along chromosomes and crossover interference limits the coincidence of closely spaced crossovers. Crossovers can be measured by observing the inheritance of linked transgenes expressing different colors of fluorescent protein in Arabidopsis pollen tetrads. Here we establish DeepTetrad, a deep learning-based image recognition package for pollen tetrad analysis that enables high-throughput measurements of crossover frequency and interference in individual plants. DeepTetrad will accelerate genetic dissection of mechanisms that control meiotic recombination.

Comparative anther and pollen tetrad development in functionally monoecious Pseuduvaria trimera (Annonaceae), and evolutionary implications for anther indehiscence

The multiple evolutionary origins and diverse morphologies of unisexual flowers in angiosperms indicate that many different developmental mechanisms [sporophytic and (or) gametophytic tissues] underlie patterns of sex differentiation, yet, these mechanisms leading to unisexuality remain largely unresolved. In Pseuduvaria trimera (W.G. Craib) Y.C.F. Su & R.M.K. Saunders, morphologically hermaphroditic flowers are functionally female due to indehiscent anthers, but the developmental and anatomical mechanisms preventing their dehiscence are still unknown. Anther and pollen development were compared in both male and functionally female flowers using histological observations to test whether anther indehiscence results from a sporophytic and (or) gametophytic default. The epidermis, endothecium, middle layers, and pollen development were identical in the two floral morphs, but variations occurred in the tapetum and stomium regions. In male flowers, concurrently with the binucleate tapetal cell degeneration, the appearance of intercellular spaces and lysis of the stomium region cells lead to anther dehiscence. Conversely, in the functionally female flowers, trinucleate tapetum appears with delayed degradation, and the persistent cells with a highly vacuolated cytoplasm and stomium region remain intact at maturity. Sporophytic tissues with tapetum abnormalities and stomium integrity are, thus, responsible for anther indehiscence. Lack of microspore rotation in P. trimera might indicate a different evolutionary origin of pollen tetrad formation in this family.

Effects of atmospheric pollutants on somatic and germ cells of Tradescantia pallida (Rose) D.R. HUNT cv. purpurea

Anatomical alterations in leaves and DNA damage in cells caused by the accumulation of atmospheric pollutants can be measured by epidermal leaf analyses and Tradescantia micronuclei assay with early pollen tetrad cells. The present study examined the feasibility of using somatic and germ cells of Tradescantia pallida for biomonitoring purposes in the city of Dourados, state of Mato Grosso do Sul (MS), Brazil. Stomatal, micronucleus and epidermal leaf analyses were performed, using standard methodologies, on plants growing at three locations during six different time periods. Tradescantia micronuclei data were analyzed using SAS 9.2 software package and stomatal data were analyzed using SANEST software. Analyses of stomatal characteristics and micronuclei examination in T. pallida were found to be an efficient tool for monitoring atmospheric pollution. The micronucleus assay suggested that the number of micronuclei in early pollen tetrad cells was related to the intensity of vehicular traffic. Increased number of epidermal cells and stomata and increased stomatal density observed at locations with greater vehicular traffic are likely physiological responses of those plants to the increased gas exchange in highly polluted environments.

Aberrant Classopollis pollen reveals evidence for unreduced (2 n ) pollen in the conifer family Cheirolepidiaceae during the Triassic–Jurassic transition

Polyploidy (or whole-genome doubling) is a key mechanism for plant speciation leading to new evolutionary lineages. Several lines of evidence show that most species among flowering plants had polyploidy ancestry, but it is virtually unknown for conifers. Here, we study variability in pollen tetrad morphology and the size of the conifer pollen type Classopollis extracted from sediments of the Triassic–Jurassic transition, 200 Ma. Classopollis producing Cheirolepidiaceae were one of the most dominant and diverse groups of conifers during the Mesozoic. We show that aberrant pollen Classopollis tetrads, triads and dyads, and the large variation in pollen size indicates the presence of unreduced (2 n ) pollen, which is one of the main mechanisms in modern polyploid formation. Polyploid speciation may explain the high variability of growth forms and adaptation of these conifers to different environments and their resistance to extreme growth conditions. We suggest that polyploidy may have also reduced the extinction risk of these conifers during the End-Triassic biotic crisis.