A brief review of applications of antifreeze proteins in cryopreservation and metabolic genetic engineering

Naing, Aung Htay; Kim, Chang Kil

doi:10.1007/s13205-019-1861-y

Cited by 41 publications

(22 citation statements)

References 104 publications

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“…Although AFP III treatment could enhance seed germination, it may exert toxic effects on the seeds, resulting in slow seedling growth. Some adverse effects of AFP III have also been reported in previous studies (Naing and Kim 2019). Furthermore, AFP I has been shown to have more effective utilization than AFP III in cryopreservation (Naing and Kim 2019).…”

Section: Discussionmentioning

confidence: 60%

Antifreeze proteins promote the germination of low temperature-treated petunia seeds via regulation of antioxidant- and proline-related genes

et al. 2020

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The involvement of antifreeze proteins (AFPs; type I and III) in the germination of low temperature-treated petunia seeds (cv. 'Mirage Rose') was investigated. The addition of AFPs (300 or 500 µg/l) in low-temperature treatment significantly promoted the germination of seeds compared with that in which AFPs were not added. Among all treatments, treatment with AFP I added at 300 µg/l showed the highest germination percentage and improved plant growth. The expression levels of antioxidant-related genes such as superoxide dismutase, peroxidase, and proline synthesis were associated with the germination of low temperature-treated seeds. Overall, this study demonstrated that AFP I may potentially function as a cold-protective agent for the germination of low temperature-treated seeds.

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Section: Discussionmentioning

confidence: 60%

Antifreeze proteins promote the germination of low temperature-treated petunia seeds via regulation of antioxidant- and proline-related genes

et al. 2020

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“…The final feature vector F is computed by concatenating the individual feature vectors as shown in Eq. (12). The value of each descriptor is calculated by dividing the number of occurrences of that amino acid pair by the total number of j-spaced residue pairs (N 0 , N 1 … N j ) in the protein.…”

Section: Methods Evaluation Parametersmentioning

confidence: 99%

AFP-LSE: Antifreeze Proteins Prediction Using Latent Space Encoding of Composition of k-Spaced Amino Acid Pairs

Usman

Khan

Lee

2020

Sci Rep

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Species living in extremely cold environments resist the freezing conditions through antifreeze proteins (Afps). Apart from being essential proteins for various organisms living in sub-zero temperatures, Afpshave numerous applications in different industries. They possess very small resemblance to each other and cannot be easily identified using simple search algorithms such as BLAST and PSI-BLAST. Diverse AFPs found in fishes (Type I, II, III, IV and antifreeze glycoproteins (AFGPs)), are sub-types and show low sequence and structural similarity, making their accurate prediction challenging. Although several machine-learning methods have been proposed for the classification of AFPs, prediction methods that have greater reliability are required. In this paper, we propose a novel machine-learning-based approach for the prediction of AFP sequences using latent space learning through a deep auto-encoder method. For latent space pruning, we use the output of the auto-encoder with a deep neural network classifier to learn the non-linear mapping of the protein sequence descriptor and class label. The proposed method outperformed the existing methods, yielding excellent results in comparison. A comprehensive ablation study is performed, and the proposed method is evaluated in terms of widely used performance measures. In particular, the proposed method demonstrated a high Matthews correlation coefficient of 0.52, F-score of 0.49, and Youden's index of 0.81 on an independent test dataset, thereby outperforming the existing methods for Afp prediction.In Antarctic fish, a survival mechanism that prevented them from freezing in seawater at sub-zero temperatures was observed, which led to the discovery of antifreeze proteins (AFP) 1 . AFPs have been identified as a crucial substance for resisting a freezing environment in various species including plants, bacteria, fungi, insects, and animals 2 . Ice exists in different geometric shapes due to the varying arrangements of oxygen atoms; therefore, the structural and sequential arrangements of AFPs largely vary to accommodate this heterogeneity of ice molecules 3 . Ice also exhibits the property of recrystallization, by which small ice crystals bind to the water molecules, thus becoming a large ice lattice, causing severe damage to the cell membrane, which, in some cases, may be lethal 4 . AFPs are commonly categorized into glycoproteins (AFGPs) and non-glycoproteins (AFPs) 5 . They protect the organisms using two mechanisms: (i) thermal hysteresis (TH), by which the freezing point of water is depressed to a few degrees by the adsorption-inhibition effect without altering the melting point 6 ; (ii) ice crystal inhibition, by which the AFP sites bind to the surfaces of ice and inhibit their growth to become a larger ice lattice, developing either small harmless ice crystals or forming a needle-shaped lattice, thus diminishing the recrystallization property of ice 2 .AFPs are indispensable in organisms such as fish 7 , fungi 8 , bacteria 9 , plants 10 , and insects 11 . Furthermo...

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“…The nucleation of ice is vital in cloud physics and impacts on a broad range of matters, from the cryopreservation of food, tissues, organs, and stem cells [ 1 , 2 , 3 , 4 , 5 , 6 , 7 , 8 , 9 , 10 , 11 , 12 , 13 , 14 , 15 ] to the prevention of icing on aircraft wings, bridge cables, wind turbines, and other structures [ 16 , 17 , 18 , 19 , 20 , 21 , 22 ]. Ice nucleation thus has broad implications in medicine, food engineering, mineralogy, biology, and other fields.…”

Section: Introductionmentioning

confidence: 99%

Brief Overview of Ice Nucleation

Maeda

2021

Molecules

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The nucleation of ice is vital in cloud physics and impacts on a broad range of matters from the cryopreservation of food, tissues, organs, and stem cells to the prevention of icing on aircraft wings, bridge cables, wind turbines, and other structures. Ice nucleation thus has broad implications in medicine, food engineering, mineralogy, biology, and other fields. Nowadays, the growing threat of global warming has led to intense research activities on the feasibility of artificially modifying clouds to shift the Earth’s radiation balance. For these reasons, nucleation of ice has been extensively studied over many decades and rightfully so. It is thus not quite possible to cover the whole subject of ice nucleation in a single review. Rather, this feature article provides a brief overview of ice nucleation that focuses on several major outstanding fundamental issues. The author’s wish is to aid early researchers in ice nucleation and those who wish to get into the field of ice nucleation from other disciplines by concisely summarizing the outstanding issues in this important field. Two unresolved challenges stood out from the review, namely the lack of a molecular-level picture of ice nucleation at an interface and the limitations of classical nucleation theory.

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A brief review of applications of antifreeze proteins in cryopreservation and metabolic genetic engineering

Cited by 41 publications

References 104 publications

Antifreeze proteins promote the germination of low temperature-treated petunia seeds via regulation of antioxidant- and proline-related genes

Antifreeze proteins promote the germination of low temperature-treated petunia seeds via regulation of antioxidant- and proline-related genes

AFP-LSE: Antifreeze Proteins Prediction Using Latent Space Encoding of Composition of k-Spaced Amino Acid Pairs

Brief Overview of Ice Nucleation

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