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In agriculture, image segmentation is extensively used for crop and soil monitoring, predicting the best times to sow, fertilize, and harvest, estimating crop yield, and detecting plant diseases. However, image segmentation faces difficulties in agriculture, such as the challenges of disease staging recognition, labeling inconsistency, and changes in plant morphology with the environment. Consequently, we have conducted a comprehensive review of image segmentation techniques based on deep learning, exploring the development and prospects of image segmentation in agriculture. Deep learning-based image segmentation solutions widely used in agriculture are categorized into eight main groups: encoder-decoder structures, multi-scale and pyramid-based methods, dilated convolutional networks, visual attention models, generative adversarial networks, graph neural networks, instance segmentation networks, and transformer-based models. In addition, the applications of image segmentation methods in agriculture are presented, such as plant disease detection, weed identification, crop growth monitoring, crop yield estimation, and counting. Furthermore, a collection of publicly available plant image segmentation datasets has been reviewed, and the evaluation and comparison of performance for image segmentation algorithms have been conducted on benchmark datasets. Finally, there is a discussion of the challenges and future prospects of image segmentation in agriculture.<\/jats:p>","DOI":"10.1007\/s10462-024-10775-6","type":"journal-article","created":{"date-parts":[[2024,5,22]],"date-time":"2024-05-22T06:02:16Z","timestamp":1716357736000},"update-policy":"https:\/\/doi.org\/10.1007\/springer_crossmark_policy","source":"Crossref","is-referenced-by-count":101,"title":["Deep learning implementation of image segmentation in agricultural applications: a comprehensive review"],"prefix":"10.1007","volume":"57","author":[{"given":"Lian","family":"Lei","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Qiliang","family":"Yang","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Ling","family":"Yang","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Tao","family":"Shen","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Ruoxi","family":"Wang","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Chengbiao","family":"Fu","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"297","published-online":{"date-parts":[[2024,5,22]]},"reference":[{"key":"10775_CR1","doi-asserted-by":"publisher","unstructured":"Abdu AM, Mohd Mokji M, Sheikh UU, Khalil K (2019) Automatic disease symptoms segmentation optimized for dissimilarity feature extraction in digital photographs of plant leaves. 2019 IEEE 15th international colloquium on signal processing & its applications (CSPA). pp 60\u201364. https:\/\/doi.org\/10.1109\/CSPA.2019.8696049","DOI":"10.1109\/CSPA.2019.8696049"},{"key":"10775_CR2","doi-asserted-by":"crossref","unstructured":"Akiva P, Planche B, Roy A, Dana K, Oudemans P, Mars M (2021) Ai on the bog: Monitoring and evaluating cranberry crop risk. 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