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To accomplish this, we first use our pipeline for mapping and planning collision-free paths online, which endows an AUV with the capability to autonomously acquire optical data in close proximity. With that information, we then propose a reconstruction pipeline to create a photo-realistic textured 3D model of the inspected area. These 3D models are also of particular interest to other fields of study in marine sciences, since they can serve as base maps for environmental monitoring, thus allowing change detection of biological communities and their environment over time. Finally, we evaluate our approach using the Sparus II, a torpedo-shaped AUV, conducting inspection missions in a challenging, real-world and natural scenario.<\/jats:p>","DOI":"10.3390\/s16081174","type":"journal-article","created":{"date-parts":[[2016,7,26]],"date-time":"2016-07-26T10:34:47Z","timestamp":1469529287000},"page":"1174","update-policy":"https:\/\/doi.org\/10.3390\/mdpi_crossmark_policy","source":"Crossref","is-referenced-by-count":58,"title":["Autonomous Underwater Navigation and Optical Mapping in Unknown Natural Environments"],"prefix":"10.3390","volume":"16","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-9593-6789","authenticated-orcid":false,"given":"Juan","family":"Hern\u00e1ndez","sequence":"first","affiliation":[{"name":"Underwater Vision and Robotics Research Center (CIRS), Computer Vision and Robotics Institute (VICOROB), University of Girona, C\\Pic de Peguera, 13 (La Creueta), 17003 Girona, Spain"}]},{"given":"Klemen","family":"Isteni\u010d","sequence":"additional","affiliation":[{"name":"Underwater Vision and Robotics Research Center (CIRS), Computer Vision and Robotics Institute (VICOROB), University of Girona, C\\Pic de Peguera, 13 (La Creueta), 17003 Girona, Spain"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-4675-9595","authenticated-orcid":false,"given":"Nuno","family":"Gracias","sequence":"additional","affiliation":[{"name":"Underwater Vision and Robotics Research Center (CIRS), Computer Vision and Robotics Institute (VICOROB), University of Girona, C\\Pic de Peguera, 13 (La Creueta), 17003 Girona, Spain"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-2266-9624","authenticated-orcid":false,"given":"Narc\u00eds","family":"Palomeras","sequence":"additional","affiliation":[{"name":"Underwater Vision and Robotics Research Center (CIRS), Computer Vision and Robotics Institute (VICOROB), University of Girona, C\\Pic de Peguera, 13 (La Creueta), 17003 Girona, Spain"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-4718-468X","authenticated-orcid":false,"given":"Ricard","family":"Campos","sequence":"additional","affiliation":[{"name":"Underwater Vision and Robotics Research Center (CIRS), Computer Vision and Robotics Institute (VICOROB), University of Girona, C\\Pic de Peguera, 13 (La Creueta), 17003 Girona, Spain"}]},{"given":"Eduard","family":"Vidal","sequence":"additional","affiliation":[{"name":"Underwater Vision and Robotics Research Center (CIRS), Computer Vision and Robotics Institute (VICOROB), University of Girona, C\\Pic de Peguera, 13 (La Creueta), 17003 Girona, Spain"}]},{"given":"Rafael","family":"Garc\u00eda","sequence":"additional","affiliation":[{"name":"Underwater Vision and Robotics Research Center (CIRS), Computer Vision and Robotics Institute (VICOROB), University of Girona, C\\Pic de Peguera, 13 (La Creueta), 17003 Girona, Spain"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-3117-9691","authenticated-orcid":false,"given":"Marc","family":"Carreras","sequence":"additional","affiliation":[{"name":"Underwater Vision and Robotics Research Center (CIRS), Computer Vision and Robotics Institute (VICOROB), University of Girona, C\\Pic de Peguera, 13 (La Creueta), 17003 Girona, Spain"}]}],"member":"1968","published-online":{"date-parts":[[2016,7,26]]},"reference":[{"key":"ref_1","doi-asserted-by":"crossref","first-page":"24","DOI":"10.1109\/MRA.2011.2181683","article-title":"Robots for environmental monitoring: Significant advancements and applications","volume":"19","author":"Dunbabin","year":"2012","journal-title":"IEEE Robot. 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