In the broad sense of Proches and Ramdhani's 2012 global biogeographical regions, yes. In the narrower sense of floristic provinces, it may depend on the specific treatment, but I would guess not.
"Is it correct to call (treat) southern (austral) Andean fauna and flora as Patagonian fauna and flora?"
well, that could be a subject of a joint project proposal in a recently launched EU research-program
I think there is no simply answer to this question, but you should find some preliminar supporting information in geographical and phytogeographical previous studies. Brazilian Geographer Ab'Saber made an early cartographic proposal splitting the continent in large "Geographical Domains" (in Portuguese: https://www.dropbox.com/s/9wkdgm652kwi4m9/absaber1977.pdf?dl=0). Cabrera & Willink 1973. Biogeografia de America Latina, is probably the most important reference you should check to see how they organizes the areas you are interested in. I Also recomend Morrone 2001 and Olson et al. 2001. The nice think in Olson is that they give you a link to download the shapefile they constructed to the world's ecoregions, so you can download it and make your own maps comparing areas in your context (I have done this for the South American Dry forests and it was really useful: http://www.biotaxa.org/Phytotaxa/article/view/phytotaxa.97.1.1).
Cabrera ÁL, Willink A (1973) Biogeografia de America Latina. Secretaría General de la Organización de los Estados Americanos, Programa Regional de Desarrollo Científico y Tecnológico, Washington
Morrone JJ (2001) Biogeografía de América Latina y el Caribe. 148. M&T–Manuales & Tesis SEA; Oficina Regional de Ciencia y Tecnología para América Latina y el Caribe, UNESCO
Olson DM, Dinerstein E, Wikramanayake ED, et al (2001) Terrestrial ecoregions of the world: a new map of life on Earth. BioScience 51:933–938. doi: 10.1641/0006-3568(2001)051
By the way, here is a review of many systems proposed to South America: https://www.researchgate.net/publication/261077687_Biogeographical_regionalisation_of_the_Neotropical_region
Article Biogeographical regionalisation of the Neotropical Region
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