Under changing climate, trace elements like selenium (Se) have emerged as vital constituent of agro-ecosystems enabling crop plants to off-set the adverse effects of suboptimal growth conditions. The available form of selenium is important for boosting its bioavailability to crop plants having varied agro-botanical traits and root architectural systems. As compared to selenite, the selenate has a weaker soil bonding, higher absorption in the soil solution which results in a comparatively absorption by plant roots. Various factors including dry climate, high pH, optimal ambient air temperature, less accumulation of water, and low concentration of organic matter in the soil tend to boost the selenate ratio in the soil. The use of selenium pelleted seeds has emerged as an interesting and viable alternative to alleviate selenium deficiency in agricultural eco-systems. Similarly, the co-inoculation of a mixture of Selenobacteria and Arbuscular mycorrhizal fungi represents an evolving promising strategy for the bio-fortification of wheat plants to produce selenium-rich flour to supplement human dietary needs. Furthermore, in-depth research is required to assure the effectiveness of biological fertilization procedures in field conditions as well as to explore and increase our understanding pertaining to the underlying main mechanisms and channels of selenium absorption in plants. The focus of this review is to synthesize the recent developments on Se dynamics in soil-plant systems and emerging promising strategies to optimize its levels for crop plants. Recent developments regarding the use of micro-organisms as a biotechnological mean to enhance plant nutrition and crop quality have been objectively elaborated. The study becomes even more pertinent for arid and semi-arid agro-ecosystems owing to the potential role of selenium in providing stress tolerance to crop plants. Moreover, this review synthesizes and summarizes the recent developments on climate change and bioavailability, and the protective role of selenium in crop plants.