High levels of soil salinity affect plant growth, reproduction, water and ion uptake, and plant metabolism in a complex manner. In this work, the effect of salt stress on vegetative growth, photosynthetic activity, and chloroplast ultrastructure of spearmint (Mentha spicata L. var. crispa “Moroccan”) was investigated. After 2 weeks of low concentration treatments (5, 25, and 50 mM NaCl) of freshly cut shoots, we observed that the stem-derived adventitious root formation, which is a major mean for vegetative reproduction among mints, was completely inhibited at 50 mM NaCl concentration. One-week-long, high concentration (150 mM NaCl) salt stress, and isosmotic polyethylene glycol (PEG) 6000 treatments were compared in intact (rooted) plants and freshly cut, i.e., rootless shoots. Our data showed that roots have an important role in mitigating the deleterious effects of both the osmotic (PEG treatment) and specific ionic components of high salinity stress. At 50 mM NaCl or above, the ionic component of salt stress caused strong and irreversible physiological alterations. The effects include a decrease in relative water content, the maximal and actual quantum efficiency of photosystem II, relative chlorophyll content, as well as disorganization of the native chlorophyll-protein complexes as revealed by 77 K fluorescence spectroscopy. In addition, important ultrastructural damage was observed by transmission electron microscopy such as the swelling of the thylakoid lumen at 50 mM NaCl treatment. Interestingly, in almost fully dry leaf regions and leaves, granum structure was relatively well retained, however, their disorganization occurred in leaf chloroplasts of rooted spearmint treated with 150 mM NaCl. This loss of granum regularity was also confirmed in the leaves of these plants using small-angle neutron scattering measurements of intact leaves of 150 mM NaCl-stressed rooted plants. At the same time, solid-phase microextraction of spearmint leaves followed by gas chromatography and mass spectrometry (GC/MS) analyses revealed that the essential oil composition of spearmint was unaffected by the treatments applied in this work. Taken together, the used spearmint cultivar tolerates low salinity levels. However, at 50 mM NaCl concentration and above, the ionic components of the stress strongly inhibit adventitious root formation and thus their clonal propagation, and severely damage the photosynthetic apparatus.

UniProt and BFD databases together have 2.5 billion protein sequences. A large majority of these proteins have been electronically annotated. Automated annotation pipelines, vis-à-vis manual curation, have the advantage of scale and speed but are fraught with relatively higher error rates. This is because sequence homology does not necessarily translate to functional homology, molecular function specification is hierarchic and not all functional families have the same amount of experimental data that one can exploit for annotation. Consequently, customization of annotation workflow is inevitable to minimize annotation errors. In this study, we illustrate possible ways of customizing the search of sequence databases for functional homologs using profile HMMs. Choosing an optimal bit score threshold is a critical step in the application of HMMs. We illustrate ways in which an optimal bit score can be arrived at using four Case Studies. These are the single domain nucleotide sugar 6-dehydrogenase and lysozyme-C families, and SH3 and GT-A domains which are typically found as a part of multi-domain proteins. We also discuss the limitations of using profile HMMs for functional annotation and suggests some possible ways to partially overcome such limitations.

Haberlea rhodopensis is a unique desiccation-tolerant angiosperm that also survives winter frost. As, upon freezing temperatures, H. rhodopensis desiccates, the taxon is proposed to survive low temperature stress using its desiccation tolerance mechanisms. To reveal the validity of this hypothesis, we analyzed the structural alterations and organization of photosynthetic apparatus during the first hours of recovery after drought- and freezing-induced desiccation. The dynamics of the ultrastructure remodeling in the mesophyll cells and the restoration of the thylakoid membranes shared similarities independent of the reason for desiccation. Among the most obvious changes in thylakoid complexes, the proportion of the PSI-LHCII complex strongly increased around 70% relative water content (RWC), whereas the proportion of Lhc monomers decreased from the beginning of rehydration. We identified enhanced levels of cyt b6f complex proteins that contributed to the enhanced electron flow. The high abundance of proteins related to excitation energy dissipation, PsbS, Lhcb5, Lhcb6 and ELIPs, together with the increased content of dehydrins contributed to the preservation of cellular integrity. ELIP expression was maintained at high levels up to 9 h into recovery. Although the recovery processes from drought- and freezing-induced desiccation were found to be similar in progress and time scale, slight variations indicate that they are not identical.