As of January 25, 2022, Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) outbreak has caused more than 340 million infections with over 5.5 million deaths. [1] Coronavirus disease 2019 (COVID-19) patients may develop various clinical manifestations, including severe acute pulmonary disease, [2][3][4] hepatic dysfunction, [3,4] kidney injury, [4] heart damage, [3,4] gastrointestinal, [5] pancreatic symptoms, [6] and olfactory dysfunction. [7] However, due to the lagged, yet possibly long-lasting effects, [8] the impact of COVID-19 on the skeleton system has not been well characterized. Bone is the major reservoir for body calcium and phosphorus. [9] Preliminary clinical data have uncovered COVID-19-associated calcium metabolic disorders and osteoporosis. [10,11] Importantly, severe COVID-19 patients are found to have decreased blood calcium and phosphorus levels, in comparison with moderate COVID-19 patients. [12] These observations suggest a possible link between SARS-CoV-2 infection and damage in the skeleton system. In humans, severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) infection can cause medical complications across various tissues and organs. Despite the advances to understanding the pathogenesis of SARS-CoV-2, its tissue tropism and interactions with host cells have not been fully understood. Existing clinical data have revealed disordered calcium and phosphorus metabolism in Coronavirus Disease 2019 (COVID-19) patients, suggesting possible infection or damage in the human skeleton system by SARS-CoV-2. Herein, SARS-CoV-2 infection in mouse models with wildtype and beta strain (B.1.351) viruses is investigated, and it is found that bone marrow-derived macrophages (BMMs) can be efficiently infected in vivo. Single-cell RNA sequencing (scRNA-Seq) analyses of infected BMMs identify distinct clusters of susceptible macrophages, including those related to osteoblast differentiation. Interestingly, SARS-CoV-2 entry on BMMs is dependent on the expression of neuropilin-1 (NRP1) rather than the widely recognized receptor angiotensin-converting enzyme 2 (ACE2). The loss of NRP1 expression during BMM-to-osteoclast differentiation or NRP1 neutralization and knockdown can significantly inhibit SARS-CoV-2 infection in BMMs. Importantly, it is found that authentic SARS-CoV-2 infection impedes BMM-to-osteoclast differentiation. Collectively, this study provides evidence for NRP1-mediated SARS-CoV-2 infection in BMMs and establishes a potential link between disturbed osteoclast differentiation and disordered skeleton metabolism in COVID-19 patients.